Mon, 27 Apr 2020

Package taxize updated to version 0.9.95 with previous version 0.9.94 dated 2020-04-01

Title: Taxonomic Information from Around the Web
Description: Interacts with a suite of web 'APIs' for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>), Eduard Szoecs [aut], Zachary Foster [aut], Zebulun Arendsee [aut], Carl Boettiger [ctb], Karthik Ram [ctb], Ignasi Bartomeus [ctb], John Baumgartner [ctb], James O'Donnell [ctb], Jari Oksanen [ctb], Bastian Greshake Tzovaras [ctb], Philippe Marchand [ctb], Vinh Tran [ctb], Maëlle Salmon [ctb], Gaopeng Li [ctb], Matthias Grenié [ctb], rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

Diff between taxize versions 0.9.94 dated 2020-04-01 and 0.9.95 dated 2020-04-27

 DESCRIPTION                                                  |    6 
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 NAMESPACE                                                    |    4 
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 R/get_iucn.R                                                 |    2 
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 man/get_boldid.Rd                                            |    2 
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 man/get_iucn.Rd                                              |    2 
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 tests/testthat/test-rankagg.R                                |    3 
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 56 files changed, 1816 insertions(+), 1430 deletions(-)

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Package Perc updated to version 0.1.5 with previous version 0.1.4 dated 2020-03-10

Title: Using Percolation and Conductance to Find Information Flow Certainty in a Direct Network
Description: To find the certainty of dominance interactions with indirect interactions being considered.
Author: Kevin Fujii [aut], Jian Jin [aut], Jessica Vandeleest [aut, cre], Aaron Shev [aut], Brianne Beisner [aut], Brenda McCowan [aut, cph], Hsieh Fushing [aut, cph]
Maintainer: Jessica Vandeleest <vandelee@ucdavis.edu>

Diff between Perc versions 0.1.4 dated 2020-03-10 and 0.1.5 dated 2020-04-27

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 13 files changed, 134 insertions(+), 121 deletions(-)

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Package Umpire updated to version 2.0.1 with previous version 2.0.0 dated 2020-04-14

Title: Simulating Realistic Gene Expression and Clinical Data
Description: The Ultimate Microrray Prediction, Reality and Inference Engine (UMPIRE) is a package to facilitate the simulation of realistic microarray data sets with links to associated outcomes. See Zhang and Coombes (2012) <doi:10.1186/1471-2105-13-S13-S1>. Version 2.0 adds the ability to simulate realistic mixed-typed clinical data.
Author: Kevin R. Coombes, Jiexin Zhang, Caitlin E. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>

Diff between Umpire versions 2.0.0 dated 2020-04-14 and 2.0.1 dated 2020-04-27

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Package crfsuite updated to version 0.3.1 with previous version 0.3 dated 2019-05-31

Title: Conditional Random Fields for Labelling Sequential Data in Natural Language Processing
Description: Wraps the 'CRFsuite' library <https://github.com/chokkan/crfsuite> allowing users to fit a Conditional Random Field model and to apply it on existing data. The focus of the implementation is in the area of Natural Language Processing where this R package allows you to easily build and apply models for named entity recognition, text chunking, part of speech tagging, intent recognition or classification of any category you have in mind. Next to training, a small web application is included in the package to allow you to easily construct training data.
Author: Jan Wijffels [aut, cre, cph] (R wrapper), BNOSAC [cph] (R wrapper), Naoaki Okazaki [aut, ctb, cph] (CRFsuite library (BSD licensed), libLBFGS library (MIT licensed), Constant Quark Database software (BSD licensed)), Bob Jenkins [aut, ctb] (File src/cqdb/src/lookup3.c (Public Domain)), Jorge Nocedal [aut, ctb, cph] (libLBFGS library (MIT licensed)), Jesse Long [aut, ctb, cph] (RumAVL library (MIT licensed))
Maintainer: Jan Wijffels <jwijffels@bnosac.be>

Diff between crfsuite versions 0.3 dated 2019-05-31 and 0.3.1 dated 2020-04-27

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 21 files changed, 251 insertions(+), 146 deletions(-)

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Package CloneSeeker updated to version 1.0.10 with previous version 1.0.9 dated 2020-01-09

Title: Seeking and Finding Clones in Copy Number and Sequencing Data
Description: Defines the classes and functions used to simulate and to analyze data sets describing copy number variants and, optionally, sequencing mutations in order to detect clonal subsets. See Zucker et al. (2019) <doi:10.1093/bioinformatics/btz057>.
Author: Kevin R. Coombes, Mark Zucker
Maintainer: Kevin R. Coombes <krc@silicovore.com>

Diff between CloneSeeker versions 1.0.9 dated 2020-01-09 and 1.0.10 dated 2020-04-27

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Package univOutl updated to version 0.2 with previous version 0.1-5 dated 2019-09-27

Title: Detection of Univariate Outliers
Description: Well known outlier detection techniques in the univariate case. Methods to deal with skewed distribution are included too. The Hidiroglou-Berthelot (1986) method to search for outliers in ratios of historical data is implemented as well. When available, survey weights can be used in outliers detection.
Author: Marcello D'Orazio
Maintainer: Marcello D'Orazio <mdo.statmatch@gmail.com>

Diff between univOutl versions 0.1-5 dated 2019-09-27 and 0.2 dated 2020-04-27

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 10 files changed, 86 insertions(+), 37 deletions(-)

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New package SSHAARP with initial version 1.0.0
Package: SSHAARP
Version: 1.0.0
Date: 2020-04-20
Title: Searching Shared HLA Amino Acid Residue Prevalence
Authors@R: c(person("Livia", "Tran", role = c("aut", "cre"), email = "livia.tran@ucsf.edu"), person("Steven", "Mack", role= "aut", email = "steven.mack@ucsf.edu"), person("Josh", "Bredeweg", role= "ctb"), person("Dale", "Steinhardt", role= "ctb"))
Maintainer: Livia Tran <livia.tran@ucsf.edu>
Depends: R (>= 2.10)
Description: Processes amino acid alignments produced by the 'IPD-IMGT/HLA (Immuno Polymorphism-ImMunoGeneTics/Human Leukocyte Antigen) Database' to identify user-defined amino acid residue motifs shared across HLA alleles, and calculates the frequencies of those motifs based on HLA allele frequency data. 'SSHAARP' (Searching Shared HLA Amino Acid Residue Prevalence) uses 'Generic Mapping Tools (GMT)' software and the 'GMT' R package to generate global frequency heat maps that illustrate the distribution of each user-defined map around the globe. 'SSHAARP' analyzes the allele frequency data described by Solberg et al. (2008) <doi:10.1016/j.humimm.2008.05.001>, a global set of 497 population samples from 185 published datasets, representing 66,800 individuals total.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: data.table, stringr, gtools, BIGDAWG, gmt, DescTools, dplyr, sessioninfo, filesstrings
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
SystemRequirements: GMT (5 or 6), Ghostscript (>=9.6)
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-04-22 01:40:20 UTC; liviatran
Author: Livia Tran [aut, cre], Steven Mack [aut], Josh Bredeweg [ctb], Dale Steinhardt [ctb]
Repository: CRAN
Date/Publication: 2020-04-27 17:10:02 UTC

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New package rt with initial version 1.0.0
Package: rt
Type: Package
Title: Interface to the 'Request Tracker' API
Description: Provides a programmatic interface to the 'Request Tracker' (RT) HTTP API <https://rt-wiki.bestpractical.com/wiki/REST>. 'RT' is a popular ticket tracking system.
Version: 1.0.0
URL: https://github.com/nceas/rt
BugReports: https://github.com/nceas/rt/issues
Authors@R: c( person("Bryce", "Mecum", email = "mecum@nceas.ucsb.edu", role = c("aut", "cre"), comment = c(ORCID="0000-0002-0381-3766")), person("Irene", "Steves", role = "ctb"), person("National Center for Ecological Analysis and Synthesis", role = c("cph")) )
Maintainer: Bryce Mecum <mecum@nceas.ucsb.edu>
License: MIT + file LICENSE
Imports: httr, stringr
Suggests: askpass, knitr, rmarkdown, testthat, tibble
RoxygenNote: 7.1.0
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2020-04-22 05:41:26 UTC; bryce
Author: Bryce Mecum [aut, cre] (<https://orcid.org/0000-0002-0381-3766>), Irene Steves [ctb], National Center for Ecological Analysis and Synthesis [cph]
Repository: CRAN
Date/Publication: 2020-04-27 17:30:02 UTC

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New package sdglinkage with initial version 0.1.0
Package: sdglinkage
Type: Package
Title: Synthetic Data Generation for Linkage Methods Development
Version: 0.1.0
Author: Haoyuan Zhang <howardhyzhang@gmail.com>, Katie Harron <k.harron@ucl.ac.uk>, Harvey Goldstein <h.goldstein.uk@gmail.com>, Andrew Boyd <A.W.Boyd@bristol.ac.uk>, Ruth Gilbert <r.gilbert@ucl.ac.uk>
Maintainer: Haoyuan Zhang <howardhyzhang@gmail.com>
Description: A tool for synthetic data generation that can be used for linkage method development, with elements of i) gold standard file with complete and accurate information and ii) linkage files that are corrupted as we often see in raw dataset.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: bnlearn (>= 4.4.1), synthpop (>= 1.5.1), reshape (>= 0.8.8), ggplot2 (>= 3.1.1), visNetwork (>= 2.0.6), arsenal (>= 3.3.0)
Suggests: mlr (>= 2.16.0), PostcodesioR (>= 0.1.1), reclin, dplyr, knitr, rmarkdown, testthat
RoxygenNote: 7.0.2
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-04-20 21:39:05 UTC; Haoyuan
Repository: CRAN
Date/Publication: 2020-04-27 16:20:03 UTC

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Package rootSolve updated to version 1.8.2.1 with previous version 1.8.2 dated 2019-12-19

Title: Nonlinear Root Finding, Equilibrium and Steady-State Analysis of Ordinary Differential Equations
Description: Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE). Includes routines that: (1) generate gradient and jacobian matrices (full and banded), (2) find roots of non-linear equations by the 'Newton-Raphson' method, (3) estimate steady-state conditions of a system of (differential) equations in full, banded or sparse form, using the 'Newton-Raphson' method, or by dynamically running, (4) solve the steady-state conditions for uni-and multicomponent 1-D, 2-D, and 3-D partial differential equations, that have been converted to ordinary differential equations by numerical differencing (using the method-of-lines approach). Includes fortran code.
Author: Karline Soetaert [aut, cre], Alan C. Hindmarsh [ctb] (files lsodes.f, sparse.f), S.C. Eisenstat [ctb] (file sparse.f), Cleve Moler [ctb] (file dlinpk.f), Jack Dongarra [ctb] (file dlinpk.f), Youcef Saad [ctb] (file dsparsk.f)
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>

Diff between rootSolve versions 1.8.2 dated 2019-12-19 and 1.8.2.1 dated 2020-04-27

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 14 files changed, 836 insertions(+), 818 deletions(-)

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Package isotree updated to version 0.1.11 with previous version 0.1.8 dated 2020-01-08

Title: Isolation-Based Outlier Detection
Description: Fast and multi-threaded implementation of isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>), extended isolation forest (Hariri, Kind, Brunner (2018) <arXiv:1811.02141>), SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>), and fair-cut forest (Cortes (2019) <arXiv:1911.06646>), for isolation-based outlier detection, clustered outlier detection, distance or similarity approximation (Cortes (2019) <arXiv:1910.12362>), and imputation of missing values (Cortes (2019) <arXiv:1911.06646>), based on random or guided decision tree splitting. Provides simple heuristics for fitting the model to categorical columns and handling missing data, and offers options for varying between random and guided splits, and for using different splitting criteria.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>

Diff between isotree versions 0.1.8 dated 2020-01-08 and 0.1.11 dated 2020-04-27

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New package genscore with initial version 1.0.2
Package: genscore
Type: Package
Title: Generalized Score Matching Estimators
Version: 1.0.2
Author: Shiqing Yu, Lina Lin, Wally Gilks
Maintainer: Shiqing Yu <syu.phd@gmail.com>
Description: Implementation of the Generalized Score Matching estimator in Yu et al. (2019) <http://jmlr.org/papers/v20/18-278.html> for non-negative graphical models (truncated Gaussian, exponential square-root, gamma, a-b models) and univariate truncated Gaussian distributions. Also includes the original estimator for untruncated Gaussian graphical models from Lin et al. (2016) <doi:10.1214/16-EJS1126>, with the addition of a diagonal multiplier.
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: Matrix, igraph, zoo, knitr, rmarkdown, cubature
Imports: Rdpack, mvtnorm, tmvtnorm, stringr
URL: https://github.com/sqyu/genscore
BugReports: https://github.com/sqyu/genscore/issues
RdMacros: Rdpack
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2020-04-24 19:23:21 UTC; shimizumasami
Repository: CRAN
Date/Publication: 2020-04-27 16:20:09 UTC

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New package GAS with initial version 0.3.3
Package: GAS
Type: Package
Title: Generalized Autoregressive Score Models
Version: 0.3.3
Authors@R: c(person("Leopoldo", "Catania", role = c("aut", "cre"), email = "leopoldo.catania@econ.au.dk", comment = c(ORCID = "0000-0002-1000-5142")), person("David", "Ardia", role = c("ctb"), email = "david.ardia.ch@gmail.com", comment = c(ORCID = "0000-0003-2823-782X")), person("Kris", "Boudt", role = c("ctb"), email = "kris.boudt@ugent.be", comment = c(ORCID = "0000-0002-1000-5142")))
Maintainer: Leopoldo Catania <leopoldo.catania@econ.au.dk>
Description: Simulate, estimate and forecast using univariate and multivariate GAS models as described in Ardia et al. (2019) <doi:10.18637/jss.v088.i06>.
License: GPL-3
BugReports: https://github.com/LeopoldoCatania/GAS/issues
URL: https://github.com/LeopoldoCatania/GAS
LazyData: TRUE
Imports: Rcpp (>= 0.12.2), Rsolnp, MASS, xts, numDeriv, zoo, cubature
LinkingTo: Rcpp, RcppArmadillo
Depends: R (>= 3.4.0), methods
Suggests: testthat
NeedsCompilation: yes
Packaged: 2020-04-26 15:40:00 UTC; ardiad
Author: Leopoldo Catania [aut, cre] (<https://orcid.org/0000-0002-1000-5142>), David Ardia [ctb] (<https://orcid.org/0000-0003-2823-782X>), Kris Boudt [ctb] (<https://orcid.org/0000-0002-1000-5142>)
Repository: CRAN
Date/Publication: 2020-04-27 16:20:18 UTC

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New package DSOpal with initial version 1.0.0
Package: DSOpal
Type: Package
Title: 'DataSHIELD' Implementation for 'Opal'
Version: 1.0.0
Authors@R: c(person(given = "Yannick", family = "Marcon", role = c("aut", "cre"), email = "yannick.marcon@obiba.org", comment = c(ORCID = "0000-0003-0138-2023")), person(given = "Becca", family = "Wilson", role = "ctb", comment = c(ORCID = "0000-0003-2294-593X")), person("OBiBa group", role="cph", email="info@obiba.org"))
Depends: R (>= 3.5), opalr (>= 1.3), DSI (>= 1.0), methods
Description: 'DataSHIELD' is an infrastructure and series of R packages that enables the remote and 'non-disclosive' analysis of sensitive research data. This package is the 'DataSHIELD' interface implementation for 'Opal', which is the data integration application for biobanks by 'OBiBa'. Participant data, once collected from any data source, must be integrated and stored in a central data repository under a uniform model. 'Opal' is such a central repository. It can import, process, validate, query, analyze, report, and export data. 'Opal' is the reference implementation of the 'DataSHIELD' infrastructure.
License: LGPL (>= 2.1)
URL: https://www.obiba.org https://www.obiba.org/pages/products/opal/ http://www.datashield.ac.uk https://doi.org/10.1093/ije/dyu188
BugReports: https://github.com/datashield/DSOpal
RoxygenNote: 7.1.0
Encoding: UTF-8
Collate: 'OpalDriver.R' 'OpalConnection.R' 'OpalResult.R' 'datashield.aggregate.r' 'datashield.assign.r' 'datashield.command.r' 'datashield.method.r' 'datashield.symbol.r' 'datashield.workspace.r' 'logindata.R' 'utils.R'
NeedsCompilation: no
Packaged: 2020-04-20 16:52:15 UTC; yannick
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>), Becca Wilson [ctb] (<https://orcid.org/0000-0003-2294-593X>), OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Repository: CRAN
Date/Publication: 2020-04-27 16:10:02 UTC

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Package bama updated to version 1.0.0 with previous version 0.9.1 dated 2019-09-30

Title: High Dimensional Bayesian Mediation Analysis
Description: Perform mediation analysis in the presence of high-dimensional mediators based on the potential outcome framework. Bayesian Mediation Analysis (BAMA), developed by Song et al (2019) <doi:10.1111/biom.13189>, relies on two Bayesian sparse linear mixed models to simultaneously analyze a relatively large number of mediators for a continuous exposure and outcome assuming a small number of mediators are truly active. This sparsity assumption also allows the extension of univariate mediator analysis by casting the identification of active mediators as a variable selection problem and applying Bayesian methods with continuous shrinkage priors on the effects.
Author: Alexander Rix [aut, cre], Yanyi Song [aut]
Maintainer: Alexander Rix <alexrix@umich.edu>

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Package ShapePattern updated to version 2.1.0 with previous version 2.0.4 dated 2020-04-09

Title: Tools for Analyzing Shapes and Patterns
Description: This is an evolving and growing collection of tools for the quantification, assessment, and comparison of shape and pattern. This collection provides tools for: (1) the spatial decomposition of planar shapes using 'ShrinkShape' to incrementally shrink shapes to extinction while computing area, perimeter, and number of parts at each iteration of shrinking; the spectra of results are returned in graphic and tabular formats (Remmel 2015) <doi:10.1111/cag.12222>, (2) simulating landscape patterns, (3) provision of tools for estimating composition and configuration parameters from a categorical (binary) landscape map (grid) and then simulates a selected number of statistically similar landscapes. Class-focused pattern metrics are computed for each simulated map to produce empirical distributions against which statistical comparisons can be made. The code permits the analysis of single maps or pairs of maps (Remmel and Fortin 2013) <doi:10.1007/s10980-013-9905-x>, (4) counting the number of each first-order pattern element and converting that information into both frequency and empirical probability vectors (Remmel 2020) <doi:10.3390/e22040420>, and (5) computing the porosity of raster patches <doi:10.3390/su10103413>. NOTE: This is a consolidation of existing packages ('PatternClass', 'ShapePattern') to begin warehousing all shape and pattern code in a common package. Additional utility tools for handling data are provided and this package will be added to as more tools are created, cleaned-up, and documented. Note that all future developments will appear in this package and that 'PatternClass' will eventually be archived.
Author: Tarmo K. Remmel [aut, cre] (<https://orcid.org/0000-0001-6251-876X>), Marie-Josee Fortin [ctb], Ferenc Csillag [ctb], Sandor Kabos [ctb]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>

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Package factorial2x2 updated to version 0.2.0 with previous version 0.1.0 dated 2019-09-07

Title: Design and Analysis of a 2x2 Factorial Trial
Description: Used for the design and analysis of a 2x2 factorial trial for a time-to-event endpoint. It performs power calculations and significance testing as well as providing estimates of the relevant hazard ratios and the corresponding 95% confidence intervals. Important reference papers include Slud EV. (1994) <https://www.ncbi.nlm.nih.gov/pubmed/8086609> Lin DY, Gong J, Gallo P, Bunn PH, Couper D. (2016) <DOI:10.1111/biom.12507> Leifer ES, Troendle JF, Kolecki A, Follmann DA. (2020) <https://github.com/EricSLeifer/factorial2x2/blob/master/Leifer%20et%20al.%20paper.pdf>.
Author: Eric Leifer and James Troendle
Maintainer: Eric Leifer <Eric.Leifer@gmail.com>

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Package CNVScope updated to version 3.0.6 with previous version 3.0.5 dated 2020-04-22

Title: A Versatile Toolkit for Copy Number Variation Relationship Data Analysis and Visualization
Description: Provides the ability to create interaction maps, discover CNV map domains (edges), gene annotate interactions, and create interactive visualizations of these CNV interaction maps.
Author: James Dalgeish, Yonghong Wang, Jack Zhu, Paul Meltzer
Maintainer: James Dalgleish <james.dalgleish@nih.gov>

Diff between CNVScope versions 3.0.5 dated 2020-04-22 and 3.0.6 dated 2020-04-27

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Package vimp updated to version 2.0.2 with previous version 2.0.1 dated 2020-04-11

Title: Perform Inference on Algorithm-Agnostic Variable Importance
Description: Calculate point estimates of and valid confidence intervals for nonparametric, algorithm-agnostic variable importance measures in high and low dimensions, using flexible estimators of the underlying regression functions. For more information about the methods, please see Williamson et al. (Biometrics, 2020) and Williamson et al. (arXiv, 2020+) <arXiv:2004.03683>.
Author: Brian D. Williamson [aut, cre] (<https://orcid.org/0000-0002-7024-548X>), Noah Simon [aut] (<https://orcid.org/0000-0002-8985-2474>), Marco Carone [aut] (<https://orcid.org/0000-0003-2106-0953>)
Maintainer: Brian D. Williamson <brianw26@uw.edu>

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New package uchardet with initial version 1.0.6
Package: uchardet
Type: Package
Title: The Universal Character Encoding Detector
Description: R bindings of the 'uchardet', encoding detector library from Mozilla (<https://www.freedesktop.org/wiki/Software/uchardet/>). It takes a sequence of bytes in an unknown character encoding and without any additional information, and attempts to get the encoding of the text. All return names of the encodings are iconv-compatible.
Version: 1.0.6
Authors@R: c( person(given = "Artem", family = "Klevtsov", role = c("aut", "cre"), email = "a.a.klevtsov@gmail.com", comment = c(ORCID = "0000-0003-0492-6647")), person(given = "Philipp", family = "Upravitelev", role = "ctb", email = "upravitelev@gmail.com") )
License: GPL-2
Copyright: file COPYRIGHTS
URL: https://artemklevtsov.gitlab.io/uchardet, https://gitlab.com/artemklevtsov
BugReports: https://gitlab.com/artemklevtsov/uchardet/issues
Depends: R (>= 3.1.0)
Imports: Rcpp
Suggests: tinytest, knitr, rmarkdown, curl
LinkingTo: Rcpp
SystemRequirements: C++11, GNU make
NeedsCompilation: yes
ByteCompile: yes
Encoding: UTF-8
RoxygenNote: 7.1.0
VignetteBuilder: knitr
Packaged: 2020-04-23 15:52:52 UTC; unikum
Author: Artem Klevtsov [aut, cre] (<https://orcid.org/0000-0003-0492-6647>), Philipp Upravitelev [ctb]
Maintainer: Artem Klevtsov <a.a.klevtsov@gmail.com>
Repository: CRAN
Date/Publication: 2020-04-27 14:10:05 UTC

More information about uchardet at CRAN
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New package rmsfuns with initial version 1.0.0.0
Package: rmsfuns
Title: Quickly View Data Frames in 'Excel', Build Folder Paths and Create Date Vectors
Version: 1.0.0.0
Authors@R: person("Nico", "Katzke", role = c("aut", "cre"), email = "nfkatzke@gmail.com")
Description: Contains several useful navigation helper functions, including easily building folder paths, quick viewing dataframes in 'Excel', creating date vectors and changing the console prompt to reflect time.
Maintainer: Nico Katzke <nfkatzke@gmail.com>
BugReports: https://github.com/nicktz/rmsfuns/issues
Imports: utils, readr, purrr, magrittr, dplyr, tbl2xts, PerformanceAnalytics, xts, zoo
Depends: R (>= 3.2.1)
License: GPL-3
URL: https://rmsfuns.nfkatzke.com
LazyData: TRUE
RoxygenNote: 6.1.1
Suggests: lubridate, knitr, rmarkdown
Repository: CRAN
NeedsCompilation: yes
ByteCompile: yes
VignetteBuilder: knitr
Packaged: 2020-04-24 11:10:58 UTC; nico.katzke
Author: Nico Katzke [aut, cre]
Date/Publication: 2020-04-27 14:10:09 UTC

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Package hypr updated to version 0.1.7 with previous version 0.1.6 dated 2020-02-28

Title: Hypothesis Matrix Translation
Description: Translation between experimental null hypotheses, hypothesis matrices, and contrast matrices as used in linear regression models. The package is based on the method described in Schad, Vasishth, Hohenstein, and Kliegl (2019) <doi:10.1016/j.jml.2019.104038> and Rabe, Vasishth, Hohenstein, Kliegl, and Schad (2020) <doi:10.21105/joss.02134>.
Author: Maximilian M. Rabe [aut, cre], Shravan Vasishth [aut], Sven Hohenstein [aut], Reinhold Kliegl [aut], Daniel J. Schad [aut]
Maintainer: Maximilian M. Rabe <maximilian.rabe@uni-potsdam.de>

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Package ggspatial updated to version 1.1.1 with previous version 1.0.3 dated 2018-12-14

Title: Spatial Data Framework for ggplot2
Description: Spatial data plus the power of the ggplot2 framework means easier mapping when input data are already in the form of spatial objects.
Author: Dewey Dunnington [aut, cre] (<https://orcid.org/0000-0002-9415-4582>), Brent Thorne [ctb] (<https://orcid.org/0000-0002-1099-3857>)
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>

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Package rFIA updated to version 0.2.2 with previous version 0.2.1 dated 2020-04-03

Title: Space-Time Estimation of Forest Variables using the FIA Database
Description: The goal of 'rFIA' is to increase the accessibility and use of the United States Forest Services (USFS) Forest Inventory and Analysis (FIA) Database by providing a user-friendly, open source toolkit to easily query and analyze FIA Data. Designed to accommodate a wide range of potential user objectives, 'rFIA' simplifies the estimation of forest variables from the FIA Database and allows all R users (experts and newcomers alike) to unlock the flexibility inherent to the Enhanced FIA design. Specifically, 'rFIA' improves accessibility to the spatio-temporal estimation capacity of the FIA Database by producing space-time indexed summaries of forest variables within user-defined population boundaries. Direct integration with other popular R packages (e.g., 'dplyr', 'tidyr', and 'sf') facilitates efficient space-time query and data summary, and supports common data representations and API design. The package implements design-based estimation procedures outlined by Bechtold & Patterson (2005) <doi:10.2737/SRS-GTR-80>, and has been validated against estimates and sampling errors produced by FIA 'EVALIDator'. Current development is focused on the implementation of spatially-enabled model-assisted estimators to improve population, change, and ratio estimates.
Author: Hunter Stanke [aut, cre], Andrew Finley [aut]
Maintainer: Hunter Stanke <stankehu@msu.edu>

Diff between rFIA versions 0.2.1 dated 2020-04-03 and 0.2.2 dated 2020-04-27

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Package photobiology updated to version 0.10.2 with previous version 0.10.1 dated 2020-04-17

Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use in photobiology and radiation meteorology and climatology. Calculation of effective (weighted) and not-weighted irradiances/doses, fluence rates, transmittance, reflectance, absorptance, absorbance and diverse ratios and other derived quantities from spectral data. Local maxima and minima: peaks, valleys and spikes. Conversion between energy-and photon-based units. Wavelength interpolation. Astronomical calculations related solar angles and day length. Colours and vision. This package is part of the 'r4photobiology' suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>), Titta K. Kotilainen [ctb] (<https://orcid.org/0000-0002-2822-9734>), Glenn Davis [ctb], Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>

Diff between photobiology versions 0.10.1 dated 2020-04-17 and 0.10.2 dated 2020-04-27

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Package labelled updated to version 2.3.0 with previous version 2.2.2 dated 2020-02-03

Title: Manipulating Labelled Data
Description: Work with labelled data imported from 'SPSS' or 'Stata' with 'haven' or 'foreign'. This package provides useful functions to deal with "haven_labelled" and "haven_labelled_spss" classes introduced by 'haven' package.
Author: Joseph Larmarange [aut, cre] (<https://orcid.org/0000-0001-7097-700X>), Daniel Ludecke [ctb], Hadley Wickham [ctb], Michal Bojanowski [ctb], François Briatte [ctb]
Maintainer: Joseph Larmarange <joseph@larmarange.net>

Diff between labelled versions 2.2.2 dated 2020-02-03 and 2.3.0 dated 2020-04-27

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Package BayesSUR updated to version 1.1-2 with previous version 1.1-1 dated 2020-04-17

Title: Bayesian Seemingly Unrelated Regression
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Banterle et al. (2018) <doi:10.1101/467019>.
Author: Marco Banterle [aut], Zhi Zhao [aut, cre], Leonardo Bottolo [ctb], Sylvia Richardson [ctb], Alex Lewin [aut], Manuela Zucknick [ctb], Waldir Leoncio [ctb]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>

Diff between BayesSUR versions 1.1-1 dated 2020-04-17 and 1.1-2 dated 2020-04-27

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 19 files changed, 135 insertions(+), 70 deletions(-)

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New package BayesianFROC with initial version 0.2.3
Package: BayesianFROC
Type: Package
Title: FROC Analysis by Bayesian Approaches
Version: 0.2.3
Authors@R: person(given = "Issei",family = "Tsunoda",email = "tsunoda.issei1111@gmail.com", role = c("aut", "cre") )
Maintainer: Issei Tsunoda <tsunoda.issei1111@gmail.com>
Description: Execute BayesianFROC::fit_GUI_Shiny() (or fit_GUI_Shiny_MRMC()) for a graphical user interface via Shiny. The free-response receiver operating characteristic (FROC) method is a generalization of receiver operating characteristic (ROC) analysis. However, Chakraborty's classical model is non-generative in the sense that it cannot synthesize data. This package aims to modify his models to be generative using a Bayesian approach, and to verify that our models fit practical datasets. In signal detection theory, the number of true positives never exceeds the number of targets. However, this is not explained by any existing model. Thus, in this package, the author contributes to FROC theory by refining Chakraborty’s model to obtain models that are generative. This modification allows us to use FROC analysis in a general statistical scheme, and as a benefit, our generative model can be applied to calculations of posterior predictive p values that require generation of synthetic datasets from fitted models. Furthermore, this package presents new models for comparison of modalities. Modality comparison is a common problem in radiology, and has been studied extensively. However, in many medical studies, such problems are addressed with non-Bayesian methods such as ANOVA. As a supplementary topic, this work presents a Bayesian model that includes individual differences. With this model, we can account for differences between individual readers when comparing modalities, using Bayesian rather than ML-methods. The author found the existing FROC model in [1] to be non-generative for calculation of posterior predictive p values. Replacing the ML-based method with a Bayesian approach differs from standard practice but provides insight into the problems of existing methods. Please execute the following R scripts from the R (R studio) console, demo(demo_MRMC, package = "BayesianFROC"); demo(demo_srsc, package = "BayesianFROC"); demo(demo_stan, package = "BayesianFROC"); demo(demo_drawcurves_srsc, package = "BayesianFROC"); demo_Bayesian_FROC(); demo_Bayesian_FROC_without_pause(). References: [1] Dev Chakraborty (1989) <doi:10.1118/1.596358> Maximum likelihood analysis of free - response receiver operating characteristic (FROC) data. Pre-print: Issei Tsunoda; Generative Models for free-response receiver operating characteristic analysis. See the vignettes for more details.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
Imports: knitr, readxl, xlsx, stats, graphics, tcltk, grDevices, ggplot2, methods, car, crayon, DiagrammeR, bridgesampling, rhandsontable, shiny, pracma, shinydashboard, shinythemes
Suggests: openxlsx, hexbin, MASS, ggmcmc, magrittr
Depends: rstan (>= 2.18.2), R (>= 3.5.0), Rcpp
NeedsCompilation: yes
VignetteBuilder: knitr
Collate: 'AFROC.R' 'Author_vs_Chakraborty_for_AUC.R' 'BayesianFROC.R' 'Close_all_graphic_devices.R' 'ConfirmConvergence.R' 'CoronaVirus_Disease_2019.R' 'DrawCurves.R' 'Draw_an_area_of_AUC_for_srsc.R' 'FROC_via_ggplot.R' 'Make_TeX_file_for_summary.R' 'Phi__and__Phi_inv.R' 'QQQ.R' 'Rprofile.R' 'Simulation_Based_Calibration.R' 'Stan_model_minimal_incomplete.R' 'StartupMessage.R' 'StatisticForANOVA.R' 'Test_Null_Hypothesis_that_all_modalities_are_same.R' 'apply_foo.R' 'array_easy_example.R' 'array_of_hit_and_false_alarms_from_vector.R' 'check_hit_is_less_than_NL.R' 'check_rhat.R' 'chi_square_goodness_of_fit.R' 'clearWorkspace.R' 'color.R' 'convertFromJafroc.R' 'create_dataset.R' 'css_shiny.R' 'dark_theme.R' 'dataset_creator_by_specifying_only_M_Q.R' 'dataset_creator_for_many_Readers.R' 'dataset_creator_new_version.R' 'demo_Bayesian_FROC.R' 'demo_Bayesian_FROC_without_pause.R' 'development_Tools_and_Memorandum.R' 'document_dataset_MRMC.R' 'document_dataset_srsc.R' 'document_true_param.R' 'draw_latent_distribution.R' 'empty_cell_shiny.R' 'error_message.R' 'error_message_on_imaging_device_rhat_values.R' 'ex.R' 'explanation_about_package_BayesianFROC.R' 'explanation_for_what_curves_are_drawn.R' 'extract_EAP_by_array.R' 'extract_data_frame_from_dataList_MRMC.R' 'fffaaabbb.R' 'fit_Bayesian_FROC.R' 'fit_GUI.R' 'fit_GUI_MRMC.R' 'fit_GUI_MRMC_new.R' 'fit_GUI_Shiny.R' 'fit_GUI_dashboard.R' 'fit_GUI_simple_from_apppp_file.R' 'fit_MRMC_versionTWO.R' 'foo_of_a_List_of_Arrays.R' 'fut_GUI_MRMC_shiny.R' 'get_posterior_variance.R' 'give_name_srsc_data.R' 'hit_rate_adjusted_from_the_vector_p.R' 'initial_values_specification_for_stan_in_case_of_MRMC.R' 'install_imports.R' 'layout.R' 'm_q_c_vector_from_M_Q_C.R' 'make_true_parameter_MRMC.R' 'metadata.R' 'method.R' 'stanfitExtended.R' 'methods.R' 'methods_print.R' 'minimal_model_MRMC.R' 'minimal_model_MRMC2.R' 'minimal_model_MRMC2_to_check_causes.R' 'minimal_model_MRMC3.R' 'minimal_model_MRMC_development.R' 'modelComparison.R' 'multiple_degit_plot.R' 'operator.R' 'p_value_of_the_Bayesian_sense_for_chi_square_goodness_of_fit.R' 'pairs_plot_if_divergent_transition_occurred.R' 'pause.R' 'plotFROC.R' 'plot_FPF_and_TPF_from_a_dataset.R' 'plot_curve_and_hit_rate_and_false_rate_simultaneously.R' 'pnorm_or_qnorm.R' 'ppp.R' 'print_minimal_reproducible_code.R' 'priorResearch.R' 'prior_predictor.R' 'prior_print.R' 'save_an_R_object.R' 'sbcVer2.R' 'sbc_MRMC.R' 'sbc_new.R' 'showGraphicalModel.R' 'show_codes_in_my_manuscript.R' 'size_of_return_value.R' 'small_margin.R' 'snippet_for_BayesianFROC.R' 'sortAUC.R' 'stability_of_AUC_ranking_in_case_of_MRMC_data.R' 'summarise_MRMC.R' 'summary_AUC_comparison_MRMC.R' 'summary_EAP_CI_srsc.R' 'the_row_number_of_logical_vector.R' 'validation_MRMC_Create_dataList_MRMC_Hit_from_rate_etc.R' 'validation_MRMC_UNDER_CONSTRUCTION.R' 'validation_error_srsc.R' 'viewdata.R' 'waic.R' 'without_double_quote.R'
Packaged: 2020-04-27 10:42:38 UTC; 81909
Author: Issei Tsunoda [aut, cre]
Repository: CRAN
Date/Publication: 2020-04-27 14:00:07 UTC

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New package anyflights with initial version 0.2.0
Package: anyflights
Title: Query `nycflights13`-Like Air Travel Data for Given Years and Airports
Version: 0.2.0
Authors@R: c( person("Simon P.", "Couch", , "simonpatrickcouch@gmail.com", c("aut", "cre")), person("Hadley", "Wickham", , "hadley@rstudio.com", "aut"), person("RStudio", role = "cph"), person("Jay", "Lee", , "jaylee@reed.edu", "ctb"), person("Dennis", "Irorere", , "denironyx@gmail.com", "ctb") )
Description: Supplies a set of functions to query air travel data for user- specified years and airports. Datasets include on-time flights, airlines, airports, planes, and weather.
License: CC0
LazyData: true
Depends: R (>= 3.5.0)
Imports: httr, dplyr, readr, utils, tibble, lubridate, vroom, glue, purrr, stringr, curl, usethis, Rd2roxygen
URL: http://github.com/simonpcouch/anyflights
BugReports: https://github.com/simonpcouch/anyflights/issues
RoxygenNote: 7.0.2
Encoding: UTF-8
Suggests: testthat, nycflights13, covr
NeedsCompilation: no
Packaged: 2020-04-27 04:51:19 UTC; simonpcouch
Author: Simon P. Couch [aut, cre], Hadley Wickham [aut], RStudio [cph], Jay Lee [ctb], Dennis Irorere [ctb]
Maintainer: Simon P. Couch <simonpatrickcouch@gmail.com>
Repository: CRAN
Date/Publication: 2020-04-27 13:20:03 UTC

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Package maditr updated to version 0.7.1 with previous version 0.6.3 dated 2019-12-03

Title: Fast Data Aggregation, Modification, and Filtering with Pipes and 'data.table'
Description: Package provides pipe-style interface for 'data.table'. It preserves all 'data.table' features without significant impact on performance. 'let' and 'take' functions are simplified interfaces for most common data manipulation tasks. For example, you can write 'take(mtcars, mean(mpg), by = am)' for aggregation or 'let(mtcars, hp_wt = hp/wt, hp_wt_mpg = hp_wt/mpg)' for modification. Use 'take_if/let_if' for conditional aggregation/modification. 'query_if' function translates its arguments one-to-one to '[.data.table' method. Additionally there are some conveniences such as automatic 'data.frame' conversion to 'data.table'.
Author: Gregory Demin [aut, cre]
Maintainer: Gregory Demin <gdemin@gmail.com>

Diff between maditr versions 0.6.3 dated 2019-12-03 and 0.7.1 dated 2020-04-27

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Package spatstat.Knet updated to version 1.12-2 with previous version 1.11-2 dated 2019-08-09

Title: Extension to 'spatstat' for Large Datasets on a Linear Network
Description: Extension to the 'spatstat' package, for analysing large datasets of spatial points on a network. The geometrically-corrected K function is computed using the memory-efficient tree-based algorithm described by Rakshit, Baddeley and Nair (2019).
Author: Suman Rakshit [aut, cph] (<https://orcid.org/0000-0003-0052-128X>), Adrian Baddeley [cre, cph] (<https://orcid.org/0000-0001-9499-8382>)
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>

Diff between spatstat.Knet versions 1.11-2 dated 2019-08-09 and 1.12-2 dated 2020-04-27

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Package RcppArmadillo updated to version 0.9.870.2.0 with previous version 0.9.860.2.0 dated 2020-04-14

Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed under Apache License 2; previous releases were under licensed as MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that; 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'. Note that Armadillo requires a fairly recent compiler; for the g++ family at least version 4.6.* is required.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates and Binxiang Ni
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppArmadillo versions 0.9.860.2.0 dated 2020-04-14 and 0.9.870.2.0 dated 2020-04-27

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More information about RcppArmadillo at CRAN
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Package R2jags updated to version 0.6-1 with previous version 0.5-7 dated 2015-08-23

Title: Using R to Run 'JAGS'
Description: Providing wrapper functions to implement Bayesian analysis in JAGS. Some major features include monitoring convergence of a MCMC model using Rubin and Gelman Rhat statistics, automatically running a MCMC model till it converges, and implementing parallel processing of a MCMC model for multiple chains.
Author: Yu-Sung Su <suyusung@tsinghua.edu.cn>, Masanao Yajima <yajima@bu.edu>,
Maintainer: Yu-Sung Su <suyusung@tsinghua.edu.cn>

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Package lslx updated to version 0.6.10 with previous version 0.6.9 dated 2019-10-15

Title: Semi-Confirmatory Structural Equation Modeling via Penalized Likelihood or Least Squares
Description: Fits semi-confirmatory structural equation modeling (SEM) via penalized likelihood (PL) or penalized least squares (PLS). For details, please see Huang (2020) <doi:10.18637/jss.v093.i07>.
Author: Po-Hsien Huang [cre, aut], Wen-Hsin Hu [aut]
Maintainer: Po-Hsien Huang <psyphh@gmail.com>

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Package datasets.load updated to version 1.4.0 with previous version 1.2.0 dated 2020-01-07

Title: Interfaces for Loading Datasets
Description: Visual interface for loading datasets in RStudio from all installed (including unloaded) packages, also includes command line interfaces.
Author: Bastiaan quast [aut, cre]
Maintainer: Bastiaan quast <bquast@gmail.com>

Diff between datasets.load versions 1.2.0 dated 2020-01-07 and 1.4.0 dated 2020-04-27

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Package arm updated to version 1.11-1 with previous version 1.10-1 dated 2018-04-13

Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: Functions to accompany A. Gelman and J. Hill, Data Analysis Using Regression and Multilevel/Hierarchical Models, Cambridge University Press, 2007.
Author: Andrew Gelman [aut], Yu-Sung Su [aut, cre], Masanao Yajima [ctb], Jennifer Hill [ctb], Maria Grazia Pittau [ctb], Jouni Kerman [ctb], Tian Zheng [ctb], Vincent Dorie [ctb]
Maintainer: Yu-Sung Su <suyusung@tsinghua.edu.cn>

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Package SARP.moodle updated to version 0.7.1 with previous version 0.3.10 dated 2019-04-12

Title: XML Output Functions for Easy Creation of Moodle Questions
Description: Provides a set of basic functions for creating Moodle XML output files suited for importing questions in Moodle (a learning management system, see <https://moodle.org/> for more information).
Author: Emmanuel Curis [aut, cre] (<https://orcid.org/0000-0001-8382-1493>)
Maintainer: Emmanuel Curis <emmanuel.curis@parisdescartes.fr>

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Package vitae updated to version 0.2.2 with previous version 0.2.1 dated 2019-12-15

Title: Curriculum Vitae for R Markdown
Description: Provides templates and functions to simplify the production and maintenance of curriculum vitae.
Author: Mitchell O'Hara-Wild [aut, cre] (<https://orcid.org/0000-0001-6729-7695>), Rob Hyndman [aut] (<https://orcid.org/0000-0002-2140-5352>), Yihui Xie [ctb] (<https://orcid.org/0000-0003-0645-5666>)
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>

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Package RFmerge (with last version 0.1-6) was removed from CRAN

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

2020-01-09 0.1-6

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Package tricolore (with last version 1.2.1) was removed from CRAN

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

2019-07-29 1.2.1

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Package nVennR (with last version 0.2.1) was removed from CRAN

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

2018-05-11 0.2.1
2018-04-10 0.2.0
2018-03-23 0.1.5
2018-03-21 0.1.4

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Package bcmaps (with last version 0.18.0) was removed from CRAN

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

2019-02-15 0.18.0
2018-03-14 0.17.1
2018-01-18 0.17.0
2017-12-20 0.16.0

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Package Traitspace (with last version 1.1) was removed from CRAN

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

2015-11-18 1.1
2015-07-07 1.0

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Package AzureKusto updated to version 1.0.6 with previous version 1.0.5 dated 2020-01-29

Title: Interface to 'Kusto'/'Azure Data Explorer'
Description: An interface to 'Azure Data Explorer', also known as 'Kusto', a fast, highly scalable data exploration service from Microsoft: <https://azure.microsoft.com/en-us/services/data-explorer/>. Includes 'DBI' and 'dplyr' interfaces, with the latter modelled after the 'dbplyr' package, whereby queries are translated from R into the native 'KQL' query language and executed lazily. On the admin side, the package extends the object framework provided by 'AzureRMR' to support creation and deletion of databases, and management of database principals. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut], Alex Kyllo [aut, cre], dbplyr development team [cph] (Original framework for dplyr/database interface), Microsoft [cph]
Maintainer: Alex Kyllo <jekyllo@microsoft.com>

Diff between AzureKusto versions 1.0.5 dated 2020-01-29 and 1.0.6 dated 2020-04-27

 DESCRIPTION                            |    8 
 LICENSE                                |    4 
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 NEWS.md                                |   44 
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Package paws.storage updated to version 0.1.8 with previous version 0.1.7 dated 2020-03-29

Title: Amazon Web Services Storage APIs
Description: Interface to Amazon Web Services storage APIs, including 'Simple Storage Service' ('S3') and more <https://aws.amazon.com/>.
Author: David Kretch [aut, cre], Adam Banker [aut], Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>

Diff between paws.storage versions 0.1.7 dated 2020-03-29 and 0.1.8 dated 2020-04-27

 DESCRIPTION                                                      |    8 
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 NAMESPACE                                                        |   36 
 R/backup_service.R                                               |    6 
 R/dlm_service.R                                                  |    6 
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 R/efs_service.R                                                  |    6 
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 R/fsx_service.R                                                  |    6 
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 man/s3_put_bucket_website.Rd                                     |  238 +-
 man/s3_put_object.Rd                                             | 1000 +++++-----
 man/s3_put_object_acl.Rd                                         |  374 +--
 man/s3_put_object_tagging.Rd                                     |  252 +-
 man/s3_restore_object.Rd                                         |  716 +++----
 man/s3_upload_part.Rd                                            |  332 +--
 man/s3_upload_part_copy.Rd                                       |  464 ++--
 man/s3control.Rd                                                 |  122 -
 man/storagegateway.Rd                                            |  358 +--
 man/storagegateway_activate_gateway.Rd                           |  224 +-
 man/storagegateway_add_cache.Rd                                  |   96 
 man/storagegateway_add_tags_to_resource.Rd                       |  128 -
 man/storagegateway_add_upload_buffer.Rd                          |   98 
 man/storagegateway_add_working_storage.Rd                        |  108 -
 man/storagegateway_cancel_archival.Rd                            |   76 
 man/storagegateway_cancel_retrieval.Rd                           |   78 
 man/storagegateway_create_cachedi_scsi_volume.Rd                 |  244 +-
 man/storagegateway_create_snapshot.Rd                            |  154 -
 man/storagegateway_create_snapshot_from_volume_recovery_point.Rd |  144 -
 man/storagegateway_create_storedi_scsi_volume.Rd                 |  218 +-
 man/storagegateway_create_tape_with_barcode.Rd                   |  172 -
 man/storagegateway_create_tapes.Rd                               |  194 -
 man/storagegateway_delete_bandwidth_rate_limit.Rd                |   84 
 man/storagegateway_delete_chap_credentials.Rd                    |   78 
 man/storagegateway_delete_gateway.Rd                             |   94 
 man/storagegateway_delete_snapshot_schedule.Rd                   |   80 
 man/storagegateway_delete_tape.Rd                                |   72 
 man/storagegateway_delete_tape_archive.Rd                        |   62 
 man/storagegateway_delete_volume.Rd                              |   98 
 man/storagegateway_describe_bandwidth_rate_limit.Rd              |   80 
 man/storagegateway_describe_cache.Rd                             |   68 
 man/storagegateway_describe_cachedi_scsi_volumes.Rd              |   84 
 man/storagegateway_describe_chap_credentials.Rd                  |   76 
 man/storagegateway_describe_gateway_information.Rd               |   72 
 man/storagegateway_describe_maintenance_start_time.Rd            |   66 
 man/storagegateway_describe_snapshot_schedule.Rd                 |   68 
 man/storagegateway_describe_storedi_scsi_volumes.Rd              |   80 
 man/storagegateway_describe_tape_archives.Rd                     |  106 -
 man/storagegateway_describe_tape_recovery_points.Rd              |   96 
 man/storagegateway_describe_tapes.Rd                             |  122 -
 man/storagegateway_describe_upload_buffer.Rd                     |   86 
 man/storagegateway_describe_vtl_devices.Rd                       |  116 -
 man/storagegateway_describe_working_storage.Rd                   |   84 
 man/storagegateway_disable_gateway.Rd                            |   76 
 man/storagegateway_list_gateways.Rd                              |  100 -
 man/storagegateway_list_local_disks.Rd                           |   82 
 man/storagegateway_list_tags_for_resource.Rd                     |   82 
 man/storagegateway_list_volume_recovery_points.Rd                |   76 
 man/storagegateway_list_volumes.Rd                               |  106 -
 man/storagegateway_remove_tags_from_resource.Rd                  |   84 
 man/storagegateway_reset_cache.Rd                                |   90 
 man/storagegateway_retrieve_tape_archive.Rd                      |  104 -
 man/storagegateway_retrieve_tape_recovery_point.Rd               |   88 
 man/storagegateway_set_local_console_password.Rd                 |   74 
 man/storagegateway_shutdown_gateway.Rd                           |  106 -
 man/storagegateway_start_gateway.Rd                              |   84 
 man/storagegateway_update_bandwidth_rate_limit.Rd                |  108 -
 man/storagegateway_update_chap_credentials.Rd                    |  124 -
 man/storagegateway_update_gateway_information.Rd                 |  106 -
 man/storagegateway_update_gateway_software_now.Rd                |   88 
 man/storagegateway_update_maintenance_start_time.Rd              |  120 -
 man/storagegateway_update_snapshot_schedule.Rd                   |  144 -
 man/storagegateway_update_vtl_device_type.Rd                     |   80 
 192 files changed, 14926 insertions(+), 14230 deletions(-)

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