Mon, 27 Jun 2016

Package nleqslv updated to version 3.0.2 with previous version 3.0.1 dated 2016-05-03

Title: Solve Systems of Nonlinear Equations
Description: Solve a system of nonlinear equations using a Broyden or a Newton method with a choice of global strategies such as line search and trust region. There are options for using a numerical or user supplied Jacobian, for specifying a banded numerical Jacobian and for allowing a singular or ill-conditioned Jacobian.
Author: Berend Hasselman
Maintainer: Berend Hasselman <bhh@xs4all.nl>

Diff between nleqslv versions 3.0.1 dated 2016-05-03 and 3.0.2 dated 2016-06-27

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 src/nleqslv.c          |    6 ++++--
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 8 files changed, 37 insertions(+), 18 deletions(-)

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Package CUFF updated to version 1.2 with previous version 1.1 dated 2016-06-01

Title: Charles's Utility Function using Formula
Description: Utility functions that provides wrapper to descriptive base functions like cor, mean and table. It makes use of the formula interface to pass variables to functions. It also provides operators to concatenate (%+%), to repeat (%n%) and manage character vectors for nice display.
Author: Charles-Édouard Giguère
Maintainer: Charles-Édouard Giguère <ce.giguere@gmail.com>

Diff between CUFF versions 1.1 dated 2016-06-01 and 1.2 dated 2016-06-27

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 MD5         |    8 +++++---
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 6 files changed, 20 insertions(+), 11 deletions(-)

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Package Compind updated to version 1.1.2 with previous version 1.1 dated 2015-09-08

Title: Composite Indicators Functions
Description: Contains several functions to enhance approaches to the Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps.
Author: Francesco Vidoli, Elisa Fusco
Maintainer: Francesco Vidoli <fvidoli@gmail.com>

Diff between Compind versions 1.1 dated 2015-09-08 and 1.1.2 dated 2016-06-27

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Package ldamatch updated to version 1.0.1 with previous version 1.0.0 dated 2016-06-21

Title: Selection of Statistically Similar Research Groups
Description: Select statistically similar research groups by backward selection using various robust algorithms, including a heuristic based on linear discriminant analysis, multiple heuristics based on the test statistic, and parallelized exhaustive search.
Author: Kyle Gorman [aut, cre], Geza Kiss [aut]
Maintainer: Kyle Gorman <kylebgorman@gmail.com>

Diff between ldamatch versions 1.0.0 dated 2016-06-21 and 1.0.1 dated 2016-06-27

 DESCRIPTION                     |   10 ++++----
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New package SeqMADE with initial version 1.0
Package: SeqMADE
Type: Package
Title: Network Module-Based Model in the Differential Expression Analysis for RNA-Seq
Version: 1.0
Date: 2016-06-27
Author: Mingli Lei, Jia Xu, Li-Ching Huang, Lily Wang, Jing Li
Maintainer: Mingli Lei<leimingli2013@sjtu.edu.cn>
Description: A network module-based generalized linear model for differential expression analysis with the count-based sequence data from RNA-Seq.
License: GPL (>= 2)
Depends: R (>= 2.1.0),MASS
Repository: CRAN
LazyData: TRUE
NeedsCompilation: no
Packaged: 2016-06-27 03:06:53 UTC; Mingli Lei
Date/Publication: 2016-06-27 06:59:54

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Package rvg updated to version 0.1.0 with previous version 0.0.9 dated 2016-04-29

Title: R Graphics Devices for Vector Graphics Output
Description: Vector Graphics devices for 'SVG', 'DrawingML' for Microsoft Word, PowerPoint and Excel.
Author: David Gohel [aut, cre], Bob Rudis [ctb] (the javascript code used by function set_attr), Francois Brunetti [ctb] (clipping algorithms)
Maintainer: David Gohel <david.gohel@ardata.fr>

Diff between rvg versions 0.0.9 dated 2016-04-29 and 0.1.0 dated 2016-06-27

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 21 files changed, 211 insertions(+), 207 deletions(-)

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Package rstudioapi updated to version 0.6 with previous version 0.5 dated 2016-01-24

Title: Safely Access the RStudio API
Description: Access the RStudio API (if available) and provide informative error messages when it's not.
Author: Hadley Wickham [aut], JJ Allaire [aut, cre], Kevin Ushey [ctb], RStudio [cph]
Maintainer: JJ Allaire <jj@rstudio.com>

Diff between rstudioapi versions 0.5 dated 2016-01-24 and 0.6 dated 2016-06-27

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Package gkmSVM updated to version 0.70 with previous version 0.65 dated 2015-12-08

Title: Gapped-Kmer Support Vector Machine
Description: Imports the 'gkmSVM' v2.0 functionalities into R (www.beerlab.org/gkmsvm). It also uses the 'kernlab' library (separate R package by different authors) for various SVM algorithms.
Author: Mahmoud Ghandi
Maintainer: Mahmoud Ghandi <mghandi@gmail.com>

Diff between gkmSVM versions 0.65 dated 2015-12-08 and 0.70 dated 2016-06-27

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New package IntegrateBs with initial version 0.1.0
Package: IntegrateBs
Title: Integration for B-Spline
Version: 0.1.0
Authors@R: person("Yue", "Bai", email = "bai42@wisc.edu", role = c("aut", "cre"))
Maintainer: Yue Bai <bai42@wisc.edu>
Description: Integrated B-spline function.
Depends: R (>= 3.0.2)
License: GPL-2
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-26 14:03:37 UTC; dudupiggy
Author: Yue Bai [aut, cre]
Repository: CRAN
Date/Publication: 2016-06-27 06:59:52

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New package fuzzr with initial version 0.1.0
Package: fuzzr
Type: Package
Title: Fuzz-Test R Functions
Version: 0.1.0
Authors@R: person("Matthew", "Lincoln", email = "matthew.d.lincoln@gmail.com", role = c("aut", "cre"))
Description: Test function arguments with a wide array of inputs, and produce reports summarizing messages, warnings, errors, and returned values.
License: MIT + file LICENSE
LazyData: TRUE
RoxygenNote: 5.0.1
Imports: assertthat, progress, purrr, tidyr
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
URL: https://github.com/mdlincoln/fuzzr
BugReports: https://github.com/mdlincoln/fuzzr/issues
NeedsCompilation: no
Packaged: 2016-06-26 17:23:31 UTC; admin
Author: Matthew Lincoln [aut, cre]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>
Repository: CRAN
Date/Publication: 2016-06-27 07:00:02

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Package future.BatchJobs updated to version 0.12.1 with previous version 0.12.0 dated 2016-06-26

Title: A Future for BatchJobs
Description: Simple parallel and distributed processing using futures that utilizes the 'BatchJobs' framework, e.g. 'fit %<-% { glm(y ~ x + z) }'. This package implements the Future API of the 'future' package.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

Diff between future.BatchJobs versions 0.12.0 dated 2016-06-26 and 0.12.1 dated 2016-06-27

 DESCRIPTION                       |    8 ++---
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 tests/001.assert-backend.R        |    7 ++++
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 tests/batchjobs_custom.R          |    1 
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 vignettes/future.BatchJobs.md.rsp |   31 ++++++++++---------
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New package dtplyr with initial version 0.0.1
Package: dtplyr
Title: Data Table Back-End for 'dplyr'
Version: 0.0.1
Authors@R: c( person("Hadley", "Wickham", , "hadley@rstudio.com", role = c("aut", "cre")), person("RStudio", role = "cph") )
Description: This implements the data table back-end for 'dplyr' so that you can seamlessly use data table and 'dplyr' together.
License: GPL (>= 2)
Imports: dplyr (>= 0.5.0), data.table, lazyeval
Suggests: Lahman, nycflights13, testthat, covr
LazyData: true
RoxygenNote: 5.0.1
URL: https://github.com/hadley/dtplyr
BugReports: https://github.com/hadley/dtplyr/issues
NeedsCompilation: no
Packaged: 2016-06-26 15:50:06 UTC; hadley
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Repository: CRAN
Date/Publication: 2016-06-27 06:59:59

More information about dtplyr at CRAN
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Package archivist.github updated to version 0.2.1 with previous version 0.2.0 dated 2016-06-13

Title: Tools for Archiving, Managing and Sharing R Objects via GitHub
Description: The extension of the 'archivist' package integrating the archivist with GitHub via GitHub API, 'git2r' packages and 'httr' package.
Author: Marcin Kosinski [aut, cre], Przemyslaw Biecek [aut]
Maintainer: Marcin Kosinski <m.p.kosinski@gmail.com>

Diff between archivist.github versions 0.2.0 dated 2016-06-13 and 0.2.1 dated 2016-06-27

 DESCRIPTION |    6 +++---
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Sun, 26 Jun 2016

Package survival updated to version 2.39-5 with previous version 2.39-4 dated 2016-05-11

Title: Survival Analysis
Description: Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models, and parametric accelerated failure time models.
Author: Terry M Therneau [aut, cre], Thomas Lumley [ctb, trl] (original S->R port and maintainer until 2009)
Maintainer: Terry M Therneau <therneau.terry@mayo.edu>

Diff between survival versions 2.39-4 dated 2016-05-11 and 2.39-5 dated 2016-06-26

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 survival-2.39-5/survival/R/survfit.matrix.R        |   67 ++-------
 survival-2.39-5/survival/R/survfitms.R             |   15 +-
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 survival-2.39-5/survival/inst/NEWS.Rd              |   23 +++
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 survival-2.39-5/survival/inst/doc/splines.R        |   61 +++++---
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Package npROCRegression updated to version 1.0-2 with previous version 1.0-1 dated 2016-06-22

Title: Kernel-Based Nonparametric ROC Regression Modelling
Description: Implements several nonparametric regression approaches for the inclusion of covariate information on the receiver operating characteristic (ROC) framework.
Author: Maria Xose Rodriguez-Alvarez [aut, cre], Javier Roca-Pardinas [aut]
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@uvigo.es>

Diff between npROCRegression versions 1.0-1 dated 2016-06-22 and 1.0-2 dated 2016-06-26

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Package magicaxis updated to version 2.0.0 with previous version 1.9.4 dated 2015-06-10

Title: Pretty Scientific Plotting with Minor-Tick and Log Minor-Tick Support
Description: Functions to make useful (and pretty) plots for scientific plotting. Additional plotting features are added for base plotting, with particular emphasis on making attractive log axis plots.
Author: Aaron Robotham
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>

Diff between magicaxis versions 1.9.4 dated 2015-06-10 and 2.0.0 dated 2016-06-26

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Package googlesheets updated to version 0.2.1 with previous version 0.2.0 dated 2016-03-18

Title: Manage Google Spreadsheets from R
Description: Interact with Google Sheets from R.
Author: Jennifer Bryan [aut, cre], Joanna Zhao [aut]
Maintainer: Jennifer Bryan <jenny@stat.ubc.ca>

Diff between googlesheets versions 0.2.0 dated 2016-03-18 and 0.2.1 dated 2016-06-26

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 googlesheets-0.2.1/googlesheets/R/gs_read_listfeed.R                                 |    6 
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 googlesheets-0.2.1/googlesheets/R/httr-helpers.R                                     |   21 
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New package future.BatchJobs with initial version 0.12.0
Package: future.BatchJobs
Version: 0.12.0
Depends: R (>= 3.2.0), future (>= 1.0.0)
Imports: BatchJobs (>= 1.6), R.utils
Suggests: listenv, markdown, R.rsp
VignetteBuilder: R.rsp
Title: A Future for BatchJobs
Authors@R: c(person("Henrik", "Bengtsson", role=c("aut", "cre", "cph"), email = "henrikb@braju.com"))
Description: Simple parallel and distributed processing using futures that utilizes the 'BatchJobs' framework, e.g. 'fit %<-% { glm.fit(x, y) }'. This package implements the Future API of the 'future' package.
License: LGPL (>= 2.1)
LazyLoad: TRUE
URL: https://github.com/HenrikBengtsson/future.BatchJobs
BugReports: https://github.com/HenrikBengtsson/future.BatchJobs/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-26 00:20:15 UTC; hb
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Repository: CRAN
Date/Publication: 2016-06-26 12:39:35

More information about future.BatchJobs at CRAN
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New package tableHTML with initial version 0.2.10
Package: tableHTML
Type: Package
Title: A Tool to Create HTML Tables
Version: 0.2.10
Authors@R: person("Theo", "Boutaris", email = "teoboot2007@hotmail.com", role = c("aut", "cre", "cph"))
URL: https://lyzander.github.io/tableHTML
BugReports: https://github.com/LyzandeR/tableHTML/issues
Depends: R (>= 3.2.0)
Imports: htmltools, magrittr
Description: A tool to easily create and style HTML tables, which are compatible with shiny.
License: MIT + file LICENSE
LazyData: TRUE
RoxygenNote: 5.0.1
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-06-25 18:22:36 UTC; teoboot
Author: Theo Boutaris [aut, cre, cph]
Maintainer: Theo Boutaris <teoboot2007@hotmail.com>
Repository: CRAN
Date/Publication: 2016-06-26 09:30:36

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Permanent link

New package InspectChangepoint with initial version 1.0
Package: InspectChangepoint
Type: Package
Title: High-Dimensional Changepoint Estimation via Sparse Projection
Version: 1.0
Date: 2016-06-24
Author: Tengyao Wang
Maintainer: Tengyao Wang <t.wang@statslab.cam.ac.uk>
Imports: stats, graphics, MASS
Description: Provides a data-driven projection-based method for estimating changepoints in high-dimensional time series. Multiple changepoints are estimated using a (wild) binary segmentation scheme.
License: GPL-3
NeedsCompilation: no
Packaged: 2016-06-25 17:53:30 UTC; tengyao
Repository: CRAN
Date/Publication: 2016-06-26 09:17:50

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Package couchDB updated to version 1.4.1 with previous version 1.3.0 dated 2014-09-09

Title: Connect to and Work with CouchDB Databases
Description: Interface to the couchDB document database <http://couchdb.apache.org>.
Author: Aleksander Dietrichson [aut, cre], Frans van Dunn<c3><a9> [ctb]
Maintainer: Aleksander Dietrichson <sasha@xrrch.com>

Diff between couchDB versions 1.3.0 dated 2014-09-09 and 1.4.1 dated 2016-06-26

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Permanent link

Package XGR updated to version 1.0.2 with previous version 1.0.1 dated 2016-04-22

Title: Exploring Genomic Relations for Precision Interpretation Through Enrichment, Similarity, Network and Annotation Analysis
Description: The central goal of XGR is to provide a data interpretation system. It is designed to make a user-defined gene or SNP list (or genomic regions) more interpretable by comprehensively utilising ontology annotations and interaction networks to reveal relationships and enhance opportunities for biological discovery. XGR is unique in supporting a broad range of ontologies (including knowledge of biological and molecular functions, pathways, diseases and phenotypes - in both human and mouse) and different types of networks (including functional, physical and pathway interactions). There are two core functionalities of XGR. The first is to provide basic infrastructures for easy access to built-in ontologies and networks. The second is to support data interpretations via 1) enrichment analysis using either built-in or custom ontologies, 2) similarity analysis for calculating semantic similarity between genes (or SNPs) based on their ontology annotation profiles, 3) network analysis for identification of gene networks given a query list of (significant) genes or SNPs, and 4) annotation analysis for interpreting genomic regions using co-localised functional genomic annotations (such as open chromatin, epigenetic marks and TF binding sites) and using nearby gene annotations (by ontologies). Together with its web app, XGR aims to provide a user-friendly tool for exploring genomic relations at the gene, SNP and genomic region level.
Author: Hai Fang, Bogdan Knezevic, Katie L Burnham, Julian C Knight
Maintainer: Hai Fang <hfang@well.ox.ac.uk>

Diff between XGR versions 1.0.1 dated 2016-04-22 and 1.0.2 dated 2016-06-26

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More information about XGR at CRAN
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Package WARN updated to version 1.2-1 with previous version 1.2-0 dated 2016-02-23

Title: Weaning Age Reconstruction with Nitrogen Isotope Analysis
Description: This estimates precise weaning ages for a given skeletal population by analyzing the stable nitrogen isotope ratios of them. Bone collagen turnover rates estimated anew and the approximate Bayesian computation (ABC) were adopted in this package.
Author: Takumi Tsutaya
Maintainer: Takumi Tsutaya <tsutayatakumi@gmail.com>

Diff between WARN versions 1.2-0 dated 2016-02-23 and 1.2-1 dated 2016-06-26

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Package tutorial updated to version 0.4.0 with previous version 0.3.1 dated 2016-05-13

Title: Convert R Markdown Files to DataCamp Light HTML Files
Description: DataCamp Light (<https://github.com/datacamp/datacamp-light>) is a light-weight implementation of the DataCamp UI, that allows you to embed interactive exercises inside HTML documents. The tutorial package makes it easy to create these HTML files from R Markdown files. An extension to knitr, tutorial detects appropriately formatted code chunks and replaces them with DataCamp Light readable chunks in the resulting HTML file.
Author: Filip Schouwenaars
Maintainer: Filip Schouwenaars <filip@datacamp.com>

Diff between tutorial versions 0.3.1 dated 2016-05-13 and 0.4.0 dated 2016-06-26

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Package preprocomb updated to version 0.3.0 with previous version 0.2.0 dated 2016-01-01

Title: Tools for Preprocessing Combinations
Description: Preprocessing is often the most time-consuming phase in data analysis and preprocessing transformations interdependent in unexpected ways. This package helps to make preprocessing faster and more effective. It provides an S4 framework for creating and evaluating preprocessing combinations for classification, clustering and outlier detection. The framework supports adding of user-defined preprocessors and preprocessing phases. Default preprocessors can be used for low variance removal, missing value imputation, scaling, outlier removal, noise smoothing, feature selection and class imbalance correction.
Author: Markus Vattulainen
Maintainer: Markus Vattulainen <markus.vattulainen@gmail.com>

Diff between preprocomb versions 0.2.0 dated 2016-01-01 and 0.3.0 dated 2016-06-26

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Package simLife updated to version 0.2.3 with previous version 0.2.1 dated 2016-06-25

Title: Simulation of Fatigue Lifetimes
Description: Provides methods for simulation and analysis of a very general fatigue lifetime model for (metal matrix) composite materials.
Author: Markus Baaske [aut, cre], Felix Ballani [aut, ctb]
Maintainer: Markus Baaske <markus.baaske@math.tu-freiberg.de>

Diff between simLife versions 0.2.1 dated 2016-06-25 and 0.2.3 dated 2016-06-26

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Sat, 25 Jun 2016

Package proxy updated to version 0.4-16 with previous version 0.4-15 dated 2015-07-08

Title: Distance and Similarity Measures
Description: Provides an extensible framework for the efficient calculation of auto- and cross-proximities, along with implementations of the most popular ones.
Author: David Meyer [aut, cre], Christian Buchta [aut]
Maintainer: David Meyer <David.Meyer@R-project.org>

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Package MALDIquant updated to version 1.15 with previous version 1.14 dated 2015-11-18

Title: Quantitative Analysis of Mass Spectrometry Data
Description: A complete analysis pipeline for matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) and other two-dimensional mass spectrometry data. In addition to commonly used plotting and processing methods it includes distinctive features, namely baseline subtraction methods such as morphological filters (TopHat) or the statistics-sensitive non-linear iterative peak-clipping algorithm (SNIP), peak alignment using warping functions, handling of replicated measurements as well as allowing spectra with different resolutions.
Author: Sebastian Gibb [aut, cre], Korbinian Strimmer [ths]
Maintainer: Sebastian Gibb <mail@sebastiangibb.de>

Diff between MALDIquant versions 1.14 dated 2015-11-18 and 1.15 dated 2016-06-25

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Package Gmedian updated to version 1.2.1 with previous version 1.2 dated 2016-04-20

Title: Geometric Median, k-Median Clustering and Robust Median PCA
Description: Fast algorithms for robust estimation with large samples of multivariate observations. Estimation of the geometric median, robust k-Gmedian clustering, and robust PCA based on the Gmedian covariation matrix.
Author: Herve Cardot
Maintainer: Herve Cardot <herve.cardot@u-bourgogne.fr>

Diff between Gmedian versions 1.2 dated 2016-04-20 and 1.2.1 dated 2016-06-25

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New package doFuture with initial version 0.2.0
Package: doFuture
Version: 0.2.0
Title: Foreach Parallel Adaptor using the Future API of the 'future' Package
Depends: future (>= 1.0.0), foreach (>= 1.4.3), iterators (>= 1.0.8)
Suggests: doRNG (>= 1.6), markdown, R.rsp
VignetteBuilder: R.rsp
Authors@R: c(person("Henrik", "Bengtsson", role=c("aut", "cre", "cph"), email = "henrikb@braju.com"))
Description: Provides a '%dopar%' adaptor such that any type of futures can be used as backends for the 'foreach' framework.
License: LGPL (>= 2.1)
LazyLoad: TRUE
URL: https://github.com/HenrikBengtsson/doFuture
BugReports: https://github.com/HenrikBengtsson/doFuture/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-25 17:25:07 UTC; hb
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Repository: CRAN
Date/Publication: 2016-06-25 19:53:58

More information about doFuture at CRAN
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Package tidytext updated to version 0.1.1 with previous version 0.1.0 dated 2016-04-28

Title: Text Mining using 'dplyr', 'ggplot2', and Other Tidy Tools
Description: Text mining for word processing and sentiment analysis using 'dplyr', 'ggplot2', and other tidy tools.
Author: Gabriela De Queiroz [ctb], David Robinson [aut], Julia Silge [aut, cre]
Maintainer: Julia Silge <julia.silge@gmail.com>

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Package statar updated to version 0.6.2 with previous version 0.6.1 dated 2016-05-20

Title: Tools Inspired by 'Stata' to Manipulate Tabular Data
Description: A set of tools inspired by 'Stata' to explore data.frames ('summarize', 'tabulate', 'xtile', 'pctile', 'binscatter', elapsed quarters/month, lead/lag).
Author: Matthieu Gomez [aut, cre]
Maintainer: Matthieu Gomez <mattg@princeton.edu>

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New package SPEDInstabR with initial version 1.0
Package: SPEDInstabR
Version: 1.0
Date: 2016-06-23
Title: Estimation of the Relative Importance of Factors Affecting Species Distribution Based on Stability Concept
Author: Cstor Guisande Gonzlez
Maintainer: Cstor Guisande Gonzlez <castor@uvigo.es>
Description: From output files obtained from the software ModestR, the relative contribution of factors to explain species distribution is depicted using several plots. A global geographic raster file for each environmental variable may be also obtained with the mean relative contribution, considering all species present in each raster cell, of the factor to explain species distribution. Finally, for each variable it is also possible to compare the frequencies of any variable obtained in the cells where the species is present with the frequencies of the same variable in the cells of the extent.
License: GPL (>= 2)
Encoding: latin1
Depends: R (>= 3.1.1), beanplot, raster, plotrix, TeachingDemos
Repository: CRAN
Packaged: 2016-06-23 20:23:34 UTC; castor
NeedsCompilation: no
Date/Publication: 2016-06-25 19:07:30

More information about SPEDInstabR at CRAN
Permanent link

Package simLife updated to version 0.2.1 with previous version 0.2 dated 2016-05-31

Title: Simulation of Fatigue Lifetimes
Description: Provides methods for simulation and analysis of a very general fatigue lifetime model for (metal matrix) composite materials.
Author: Markus Baaske [aut, cre], Felix Ballani [aut, ctb]
Maintainer: Markus Baaske <markus.baaske@math.tu-freiberg.de>

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Package rstanarm updated to version 2.10.1 with previous version 2.9.0-4 dated 2016-05-24

Title: Bayesian Applied Regression Modeling via Stan
Description: Estimates pre-compiled regression models using the 'rstan' package, which provides the R interface to the Stan C++ library for Bayesian estimation. Users specify models via the customary R syntax with a formula and data.frame plus some additional arguments for priors.
Author: Jonah Gabry [aut], Trustees of Columbia University [cph], R Core Deveopment Team [cph] (R/pp_data.R, R/stan_aov.R), Douglas Bates [cph] (R/pp_data.R), Martin Maechler [cph] (R/pp_data.R), Ben Bolker [cph] (R/pp_data.R), Steve Walker [cph] (R/pp_data.R), Brian Ripley [cph] (R/stan_aov.R, R/stan_polr.R), William Venables [cph] (R/stan_polr.R), Ben Goodrich [cre, aut]
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>

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Package metricTester updated to version 1.2.2 with previous version 1.0.2 dated 2016-05-10

Title: Test Metric and Null Model Statistical Performance
Description: Explore the behavior and performance of phylogenetic metrics and null models.
Author: Eliot Miller, Chris Trisos & Damien Farine
Maintainer: Eliot Miller <eliot.isaac@gmail.com>

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New package MixSIAR with initial version 3.1.6
Package: MixSIAR
Title: Bayesian Mixing Models in R
Version: 3.1.6
Authors@R: c( person("Brian", "Stock", email = "b1stock@ucsd.edu", role = c("cre","aut")), person("Brice", "Semmens", email = "semmens@ucsd.edu", role = "aut"), person("Eric", "Ward", role = "ctb"), person("Andrew", "Parnell", role = "ctb"), person("Andrew", "Jackson", role = "ctb"), person("Donald", "Phillips", role = "ctb"), person("Jon", "Moore", role = "ctb"), person("Stuart", "Bearhop", role = "ctb"), person("Richard", "Inger", role = "ctb"))
Description: Creates and runs Bayesian mixing models to analyze biotracer data (i.e. stable isotopes, fatty acids), which estimate the proportions of source (prey) contributions to a mixture (consumer). 'MixSIAR' is not one model, but a framework that allows a user to create a mixing model based on their data structure and research questions, via options for fixed/ random effects, source data types, priors, and error terms. 'MixSIAR' incorporates several years of advances since 'MixSIR' and 'SIAR', and includes both GUI (graphical user interface) and script versions.
Depends: R (>= 3.2.3)
Imports: ggplot2 (>= 1.0.1), rjags (>= 4-4), R2jags (>= 0.5-7), MASS (>= 7.3), RColorBrewer (>= 1.1), reshape (>= 0.8), reshape2 (>= 1.4.1), lattice (>= 0.20), compositions (>= 1.40), ggmcmc (>= 0.7.2), coda (>= 0.18-1)
Suggests: gWidgets (>= 0.0-54), gWidgetsRGtk2 (>= 0.0-83), splancs (>= 2.01-38), knitr, rmarkdown, testthat
SystemRequirements: JAGS (>= 4.1) for the script version, both JAGS and GTK+ for the GUI version. For install instructions, see manual at <https://github.com/brianstock/MixSIAR/blob/master/inst/mixsiar_manual_3.1_small.pdf>
URL: https://github.com/brianstock/MixSIAR
BugReports: https://github.com/brianstock/MixSIAR/issues
License: GPL-3
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-25 00:38:37 UTC; brian
Author: Brian Stock [cre, aut], Brice Semmens [aut], Eric Ward [ctb], Andrew Parnell [ctb], Andrew Jackson [ctb], Donald Phillips [ctb], Jon Moore [ctb], Stuart Bearhop [ctb], Richard Inger [ctb]
Maintainer: Brian Stock <b1stock@ucsd.edu>
Repository: CRAN
Date/Publication: 2016-06-25 19:07:27

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Package ks updated to version 1.10.4 with previous version 1.10.3 dated 2016-04-04

Title: Kernel Smoothing
Description: Kernel smoothers for univariate and multivariate data.
Author: Tarn Duong <tarn.duong@gmail.com>
Maintainer: Tarn Duong <tarn.duong@gmail.com>

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Package GSIF updated to version 0.5-2 with previous version 0.5-1 dated 2016-05-03

Title: Global Soil Information Facilities
Description: Global Soil Information Facilities - tools (standards and functions) and sample datasets for global soil mapping.
Author: Tomislav Hengl [cre, aut], Bas Kempen [ctb], Gerard Heuvelink [ctb], Brendan Malone [ctb]
Maintainer: Tomislav Hengl <tom.hengl@isric.org>

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Package googleAuthR updated to version 0.3.1 with previous version 0.3.0 dated 2016-05-09

Title: Easy Authentication with Google OAuth2 API
Description: Create R functions that interact with OAuth2 Google APIs easily, with auto-refresh and Shiny compatibility.
Author: Mark Edmondson [aut, cre], Jennifer Bryan [ctb], Johann deBoer [ctb]
Maintainer: Mark Edmondson <m@sunholo.com>

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Package ddpcr updated to version 1.4 with previous version 1.3 dated 2016-06-05

Title: Analysis and Visualization of Droplet Digital PCR in R and on the Web
Description: An interface to explore, analyze, and visualize droplet digital PCR (ddPCR) data in R. This is the first non-proprietary software for analyzing two-channel ddPCR data. An interactive tool was also created and is available online to facilitate this analysis for anyone who is not comfortable with using R.
Author: Dean Attali [aut, cre]
Maintainer: Dean Attali <daattali@gmail.com>

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Package benchmarkme updated to version 0.3.0 with previous version 0.2.3 dated 2016-02-26

Title: Crowd Sourced System Benchmarks
Description: Benchmark your CPU and compare against other CPUs. Also provides functions for obtaining system specifications, such as RAM, CPU type, and R version.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie <csgillespie@gmail.com>

Diff between benchmarkme versions 0.2.3 dated 2016-02-26 and 0.3.0 dated 2016-06-25

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New package BACCT with initial version 1.0
Package: BACCT
Type: Package
Title: Bayesian Augmented Control for Clinical Trials
Version: 1.0
Date: 2016-06-24
Authors@R: c( person("Hongtao", "Zhang", role = c("aut", "cre"), email = "hongtao.zhang@abbvie.com"), person("Qi", "Tang", role = "aut", email = "qi.tang@abbvie.com") )
Description: Implements the Bayesian Augmented Control (BAC, a.k.a. Bayesian historical data borrowing) method under clinical trial setting by calling 'Just Another Gibbs Sampler' ('JAGS') software. In addition, the 'BACCT' package evaluates user-specified decision rules by computing the type-I error/power, or probability of correct go/no-go decision at interim look. The evaluation can be presented numerically or graphically. Users need to have 'JAGS' 4.0.0 or newer installed due to a compatibility issue with 'rjags' package. Currently, the package implements the BAC method for binary outcome only. Support for continuous and survival endpoints will be added in future releases. We would like to thank AbbVie's Statistical Innovation group and Clinical Statistics group for their support in developing the 'BACCT' package.
Depends: R (>= 2.10)
Imports: rjags, ggplot2, reshape2
License: GPL (>= 3)
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-24 19:05:19 UTC; zhanghx5
Author: Hongtao Zhang [aut, cre], Qi Tang [aut]
Maintainer: Hongtao Zhang <hongtao.zhang@abbvie.com>
Repository: CRAN
Date/Publication: 2016-06-25 19:07:22

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Package asymmetry updated to version 1.1 with previous version 1.0 dated 2016-04-26

Title: The Slide-Vector Model for Multidimensional Scaling of Asymmetric Data
Description: The slide-vector model is provided in this package together with functions for the analysis and graphical display of asymmetry. The slide vector model is a scaling model for asymmetric data. A distance model is fitted to the symmetric part of the data whereas the asymmetric part of the data is represented by projections of the coordinates onto the slide-vector. The slide-vector points in the direction of large asymmetries in the data. The distance is modified in such a way that the distance between two points that are parallel to the slide-vector is larger in the direction of this vector. The distance is smaller in the opposite direction. If the line connecting two points is perpendicular to the slide-vector the difference between the two projections is zero. In this case the distance between the two points is symmetric. The algorithm for fitting this model is derived from the majorization approach to multidimensional scaling.
Author: Berrie Zielman
Maintainer: Berrie Zielman <berrie.zielman@gmail.com>

Diff between asymmetry versions 1.0 dated 2016-04-26 and 1.1 dated 2016-06-25

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Package AnalyzeTS updated to version 2.0 with previous version 1.9 dated 2016-05-26

Title: Analyze (Fuzzy) Time Series
Description: Analyze (fuzzy) time series, calculate AIC value of common time series models and propose the best model. Fuzzy time series can be analyzed by "Chen", "Sing", "Heuristic" and "Chen-Hsu" models. The Abbasov-Mamedova model and an improved version of the Abbasov-Mamedova model is included as well.
Author: Tran Thi Ngoc Han, Doan Hai Nghi, Mai Thi Hong Diem, Nguyen Thi Diem My, Hong Viet Minh, Vo Van Tai.
Maintainer: Hong Viet Minh <hongvietminh@gmail.com>

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Fri, 24 Jun 2016

Package validate updated to version 0.1.5 with previous version 0.1.4 dated 2016-04-15

Title: Data Validation Infrastructure
Description: Declare data validation rules and data quality indicators; confront data with them and analyze or visualize the results. The package supports rules that are per-field, in-record, cross-record or cross-dataset. Rules can be automatically analyzed for rule type and connectivity.
Author: Mark van der Loo [cre, aut], Edwin de Jonge [aut], Paul Hsieh [ctb]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>

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Package UpSetR updated to version 1.2.2 with previous version 1.2.1 dated 2016-06-01

Title: A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets
Description: Creates visualizations of intersecting sets using a novel matrix design, along with visualizations of several common set, element and attribute related tasks.
Author: Jake Conway [cre], Nils Gehlenborg [aut]
Maintainer: Jake Conway <jake_conway@student.uml.edu>

Diff between UpSetR versions 1.2.1 dated 2016-06-01 and 1.2.2 dated 2016-06-24

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Package TraMineR updated to version 1.8-12 with previous version 1.8-11.1 dated 2016-01-29

Title: Trajectory Miner: a Toolbox for Exploring and Rendering Sequences
Description: Toolbox for the manipulation, description and rendering of sequences, and more generally the mining of sequence data in the field of social sciences. Although the toolbox is primarily intended for analyzing state or event sequences that describe life courses such as family formation histories or professional careers, its features also apply to many other kinds of categorical sequence data. It accepts many different sequence representations as input and provides tools for converting sequences from one format to another. It offers several functions for describing and rendering sequences, for computing distances between sequences with different metrics (among which optimal matching), original dissimilarity-based analysis tools, and simple functions for extracting the most frequent subsequences and identifying the most discriminating ones among them. A user's guide can be found on the TraMineR web page.
Author: Alexis Gabadinho [aut, cph], Matthias Studer [aut, cph], Nicolas Muller [aut], Reto Buergin [aut], Gilbert Ritschard [aut, cre, cph]
Maintainer: Gilbert Ritschard <gilbert.ritschard@unige.ch>

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Package Thermimage updated to version 2.1.1 with previous version 2.1 dated 2016-05-18

Title: Thermal Image Analysis
Description: A collection of functions and routines for inputting thermal image video files, plotting and converting binary raw data into estimates of temperature. First published 2015-03-26. Written primarily for research purposes in biological applications of thermal images. v1 included the base calculations for converting thermal image binary values to temperatures. v2 included additional equations for providing heat transfer calculations.
Author: Glenn J. Tattersall
Maintainer: Glenn J. Tattersall <gtatters@brocku.ca>

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Package sparsediscrim updated to version 0.2.3 with previous version 0.2 dated 2014-03-31

Title: Sparse and Regularized Discriminant Analysis
Description: A collection of sparse and regularized discriminant analysis methods intended for small-sample, high-dimensional data sets. The package features the High-Dimensional Regularized Discriminant Analysis classifier.
Author: John A. Ramey <johnramey@gmail.com>
Maintainer: John A. Ramey <johnramey@gmail.com>

Diff between sparsediscrim versions 0.2 dated 2014-03-31 and 0.2.3 dated 2016-06-24

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Package SpaDES updated to version 1.2.0 with previous version 1.1.4 dated 2016-04-20

Title: Develop and Run Spatially Explicit Discrete Event Simulation Models
Description: Easily implement a variety of simulation models, with a focus on spatially explicit agent based models. These include raster-based, event-based, and agent-based models. The core simulation components are built upon a discrete event simulation framework that facilitates modularity, and easily enables the user to include additional functionality by running user-built simulation modules. Included are numerous tools to visualize raster and other maps. The suggested package `fastshp` can be installed with `install.packages("fastshp", repos="http://rforge.net", type="source")`.
Author: Alex M Chubaty [aut, cre], Eliot J B McIntire [aut], Yong Luo [ctb], Steve Cumming [ctb], Her Majesty the Queen in Right of Canada, as represented by the Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alexander.chubaty@canada.ca>

Diff between SpaDES versions 1.1.4 dated 2016-04-20 and 1.2.0 dated 2016-06-24

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Package rstan updated to version 2.10.1 with previous version 2.9.0-3 dated 2016-02-11

Title: R Interface to Stan
Description: User-facing R functions are provided to parse, compile, test, estimate, and analyze Stan models by accessing the header-only Stan library provided by the 'StanHeaders' package. The Stan project develops a probabilistic programming language that implements full Bayesian statistical inference via Markov Chain Monte Carlo, rough Bayesian inference via variational approximation, and (optionally penalized) maximum likelihood estimation via optimization. In all three cases, automatic differentiation is used to quickly and accurately evaluate gradients without burdening the user with the need to derive the partial derivatives.
Author: Jiqiang Guo [aut], Jonah Gabry [aut], Ben Goodrich [cre, aut], Daniel Lee [ctb], Krzysztof Sakrejda [ctb], Trustees of Columbia University [cph], Oleg Sklyar [cph] (R/cxxfunplus.R), The R Core Team [cph] (R/pairs.R), Jens Oehlschlaegel-Akiyoshi [cph] (R/pairs.R), Hadley Wickham [cph] (R/rtools.R), Joel de Guzman [cph] (Boost), John Fletcher [cph] (Boost), Thomas Heller [cph] (Boost), Eric Niebler [cph] (Boost)
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>

Diff between rstan versions 2.9.0-3 dated 2016-02-11 and 2.10.1 dated 2016-06-24

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More information about rstan at CRAN
Permanent link

Package Fragman updated to version 1.0.5 with previous version 1.0.4 dated 2016-04-25

Title: Fragment Analysis in R
Description: Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file, and .txt files from Beckman CEQ 8000 system, both contain DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).
Author: Giovanny Covarrubias-Pazaran, Luis Diaz-Garcia, Brandon Schlautman, Walter Salazar, Juan Zalapa.
Maintainer: Giovanny Covarrubias-Pazaran <covarrubiasp@wisc.edu>

Diff between Fragman versions 1.0.4 dated 2016-04-25 and 1.0.5 dated 2016-06-24

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More information about Fragman at CRAN
Permanent link

New package dlstats with initial version 0.0.5
Package: dlstats
Title: Download Stats of R Packages
Version: 0.0.5
Authors@R: c(person(given = "Guangchuang", family = "Yu", email = "guangchuangyu@gmail.com", role = c("aut", "cre")) )
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Description: Monthly download stats of 'CRAN' and 'Bioconductor' packages. Download stats of 'CRAN' packages is from the 'RStudio' 'CRAN mirror', see <http://cranlogs.r-pkg.org>. 'Bioconductor' package download stats is at <https://bioconductor.org/packages/stats/>.
Depends: R (>= 3.3.0)
Imports: jsonlite, magrittr, utils
Suggests: ggplot2, knitr, tidyr
License: Artistic-2.0
VignetteBuilder: knitr
ByteCompile: true
Encoding: UTF-8
LazyData: true
URL: https://github.com/GuangchuangYu/dlstats
BugReports: https://github.com/GuangchuangYu/dlstats/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-23 01:35:10 UTC; guangchuangyu
Author: Guangchuang Yu [aut, cre]
Repository: CRAN
Date/Publication: 2016-06-24 20:17:40

More information about dlstats at CRAN
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Package chunked updated to version 0.3 with previous version 0.2.1 dated 2016-04-07

Title: Chunkwise Text-File Processing for 'dplyr'
Description: Text data can be processed chunkwise using 'dplyr' commands. These are recorded and executed per data chunk, so large files can be processed with limited memory using the 'LaF' package.
Author: Edwin de Jonge
Maintainer: Edwin de Jonge <edwindjonge@gmail.com>

Diff between chunked versions 0.2.1 dated 2016-04-07 and 0.3 dated 2016-06-24

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More information about chunked at CRAN
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Package broom updated to version 0.4.1 with previous version 0.4.0 dated 2015-11-30

Title: Convert Statistical Analysis Objects into Tidy Data Frames
Description: Convert statistical analysis objects from R into tidy data frames, so that they can more easily be combined, reshaped and otherwise processed with tools like 'dplyr', 'tidyr' and 'ggplot2'. The package provides three S3 generics: tidy, which summarizes a model's statistical findings such as coefficients of a regression; augment, which adds columns to the original data such as predictions, residuals and cluster assignments; and glance, which provides a one-row summary of model-level statistics.
Author: David Robinson [aut, cre], Matthieu Gomez [ctb], Boris Demeshev [ctb], Dieter Menne [ctb], Benjamin Nutter [ctb], Luke Johnston [ctb], Ben Bolker [ctb], Francois Briatte [ctb], Jeffrey Arnold [ctb], Jonah Gabry [ctb], Luciano Selzer [ctb], Gavin Simpson [ctb], Jens Preussner [ctb], Jay Hesselberth [ctb], Hadley Wickham [ctb]
Maintainer: David Robinson <admiral.david@gmail.com>

Diff between broom versions 0.4.0 dated 2015-11-30 and 0.4.1 dated 2016-06-24

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More information about broom at CRAN
Permanent link

New package BTR with initial version 1.2.3
Package: BTR
Type: Package
Title: Training and Analysing Asynchronous Boolean Models
Version: 1.2.3
Date: 2016-6-23
Author: Chee Yee Lim
Maintainer: Chee Yee Lim <cyl49@cam.ac.uk>
Description: Tools for inferring asynchronous Boolean models from single-cell expression data.
Depends: R (>= 3.0.3), methods
Imports: parallel, Rcpp (>= 0.11.4), foreach (>= 1.4.1), doParallel (>= 1.0.8), poweRlaw (>= 0.30.0), diptest (>= 0.75-7), igraph (>= 1.0.1), infotheo (>= 1.2.0), entropy (>= 1.2.1)
LinkingTo: Rcpp
License: GPL-3
LazyData: true
Suggests: bnlearn (>= 3.8.1), knitr, rmarkdown
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-06-24 15:44:44 UTC; cylim
Repository: CRAN
Date/Publication: 2016-06-24 19:13:51

More information about BTR at CRAN
Permanent link

Package unfoldr updated to version 0.5.8 with previous version 0.5.7 dated 2016-06-24

Title: Stereological Unfolding for Spheroidal Particles
Description: Stereological unfolding as implemented in this package consists in the estimation of the joint size-shape-orientation distribution of spheroidal shaped particles based on the same measured quantities of corresponding planar section profiles. A single trivariate discretized version of the (stereological) integral equation in the case of prolate and oblate spheroids is solved numerically by the EM algorithm. The estimation of diameter distribution of spheres from planar sections (Wicksell's corpuscle problem) is also implemented. Further, the package provides routines for the simulation of a Poisson germ- grain process with either spheroids, spherocylinders or spheres as grains together with functions for planar sections. For the purpose of exact simulation a bivariate size-shape distribution is implemented.
Author: Markus Baaske [aut, cre], Felix Ballani [ctb]
Maintainer: Markus Baaske <markus.baaske@math.tu-freiberg.de>

Diff between unfoldr versions 0.5.7 dated 2016-06-24 and 0.5.8 dated 2016-06-24

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More information about unfoldr at CRAN
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Package rtson updated to version 1.2 with previous version 1.1 dated 2015-12-02

Title: Typed JSON
Description: TSON, short for Typed JSON, is a binary-encoded serialization of JSON like document that support JavaScript typed data (https://github.com/tercen/TSON).
Author: Alexandre Maurel
Maintainer: Alexandre Maurel <alexandre.maurel@gmail.com>

Diff between rtson versions 1.1 dated 2015-12-02 and 1.2 dated 2016-06-24

 DESCRIPTION                 |   12 ++--
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 11 files changed, 171 insertions(+), 110 deletions(-)

More information about rtson at CRAN
Permanent link

Package dplyr updated to version 0.5.0 with previous version 0.4.3 dated 2015-09-01

Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre], Romain Francois [aut], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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 400 files changed, 8236 insertions(+), 7772 deletions(-)

More information about dplyr at CRAN
Permanent link

Package devtools updated to version 1.12.0 with previous version 1.11.1 dated 2016-04-21

Title: Tools to Make Developing R Packages Easier
Description: Collection of package development tools.
Author: Hadley Wickham [aut, cre], Winston Chang [aut], RStudio [cph], R Core team [ctb] (Some namespace and vignette code extracted from base R)
Maintainer: Hadley Wickham <hadley@rstudio.com>

Diff between devtools versions 1.11.1 dated 2016-04-21 and 1.12.0 dated 2016-06-24

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More information about devtools at CRAN
Permanent link

Package BerlinData (with last version 1.0.1) was removed from CRAN

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

2014-12-08 1.0.1
2014-05-11 1.0.0

Permanent link
Package xml2 updated to version 1.0.0 with previous version 0.1.2 dated 2015-09-01

Title: Parse XML
Description: Work with XML files using a simple, consistent interface. Built on top of the 'libxml2' C library.
Author: Hadley Wickham [aut, cre], James Hester [aut], Jeroen Ooms [ctb], RStudio [cph], R Foundation [ctb] (Copy of R-project homepage cached as example)
Maintainer: Hadley Wickham <hadley@rstudio.com>

Diff between xml2 versions 0.1.2 dated 2015-09-01 and 1.0.0 dated 2016-06-24

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Permanent link

Package searchConsoleR updated to version 0.2.1 with previous version 0.2.0 dated 2016-04-03

Title: Google Search Console R Client
Description: Provides an interface with the Google Search Console, formally called Google Webmaster Tools.
Author: Mark Edmondson [aut, cre], Jennifer Bryan [ctb]
Maintainer: Mark Edmondson <r@sunholo.com>

Diff between searchConsoleR versions 0.2.0 dated 2016-04-03 and 0.2.1 dated 2016-06-24

 DESCRIPTION                        |    8 +-
 MD5                                |   16 ++--
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 build/vignette.rds                 |binary
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More information about searchConsoleR at CRAN
Permanent link

New package NoiseFiltersR with initial version 0.1.0
Package: NoiseFiltersR
Type: Package
Title: Label Noise Filters for Data Preprocessing in Classification
Version: 0.1.0
Authors@R: c( person("Pablo", "Morales", email = "pablomoralvarez@gmail.com", role = c("aut")), person("Julian", "Luengo", email = "julianlm@decsai.ugr.es", role = c("aut","cre")), person("Luis P.F.", "Garcia", role = c("aut")), person("Ana C.", "Lorena", role = c("aut")), person("Andre C.P.L.F.", "de Carvalho", role = c("aut")), person("Francisco", "Herrera", role = c("aut")))
Description: An extensive implementation of state-of-the-art and classical algorithms to preprocess label noise in classification problems.
License: GPL-3
LazyData: TRUE
Imports: RWeka, kknn, nnet, caret, e1071, rpart, randomForest, MASS, rJava, stats, utils
Depends: R (>= 3.3.0)
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-06-24 10:17:13 UTC; pablo
Author: Pablo Morales [aut], Julian Luengo [aut, cre], Luis P.F. Garcia [aut], Ana C. Lorena [aut], Andre C.P.L.F. de Carvalho [aut], Francisco Herrera [aut]
Maintainer: Julian Luengo <julianlm@decsai.ugr.es>
Repository: CRAN
Date/Publication: 2016-06-24 12:34:50

More information about NoiseFiltersR at CRAN
Permanent link

Package extraDistr updated to version 1.7.2 with previous version 1.7.1 dated 2016-06-18

Title: Additional Univariate and Multivariate Distributions
Description: Density, distribution function, quantile function and random generation for a number of univariate and multivariate distributions.
Author: Tymoteusz Wolodzko
Maintainer: Tymoteusz Wolodzko <twolodzko+extraDistr@gmail.com>

Diff between extraDistr versions 1.7.1 dated 2016-06-18 and 1.7.2 dated 2016-06-24

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 extraDistr-1.7.2/extraDistr/src/RcppExports.cpp                         |  138 ++++++++-
 extraDistr-1.7.2/extraDistr/src/beta-binomial-distribution.cpp          |   10 
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 extraDistr-1.7.2/extraDistr/src/const.h                                 |    7 
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 extraDistr-1.7.2/extraDistr/src/pareto-distribution.cpp                 |    2 
 extraDistr-1.7.2/extraDistr/src/proportion-distribution.cpp             |    2 
 extraDistr-1.7.2/extraDistr/src/shared.cpp                              |    2 
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 77 files changed, 554 insertions(+), 400 deletions(-)

More information about extraDistr at CRAN
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New package conclust with initial version 1.0
Package: conclust
Type: Package
Title: Pairwise Constraints Clustering
Version: 1.0
Date: 2016-06-22
Author: Tran Khanh Hiep, Nguyen Minh Duc
Maintainer: Tran Khanh Hiep <hieptkse03059@fpt.edu.vn>
Description: There are 3 main functions in this package: ckmeans(), lcvqe() and mpckm(). They take an unlabeled dataset and two lists of must-link and cannot-link constraints as input and produce a clustering as output.
License: GPL-3
NeedsCompilation: no
Packaged: 2016-06-24 10:06:02 UTC; Hiep
Repository: CRAN
Date/Publication: 2016-06-24 12:20:11

More information about conclust at CRAN
Permanent link

Package XLConnectJars updated to version 0.2-12 with previous version 0.2-9 dated 2014-08-14

Title: JAR Dependencies for the XLConnect Package
Description: Provides external JAR dependencies for the XLConnect package.
Author: Mirai Solutions GmbH [aut], Martin Studer [cre], The Apache Software Foundation [ctb, cph] (Apache POI, Apache XMLBeans)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>

Diff between XLConnectJars versions 0.2-9 dated 2014-08-14 and 0.2-12 dated 2016-06-24

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More information about XLConnectJars at CRAN
Permanent link

Package XLConnect updated to version 0.2-12 with previous version 0.2-11 dated 2015-03-01

Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut], Martin Studer [cre], The Apache Software Foundation [ctb, cph] (Apache POI, Apache Commons Codec), Stephen Colebourne [ctb, cph] (Joda-Time Java library), Graph Builder [ctb, cph] (Curvesapi Java library)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>

Diff between XLConnect versions 0.2-11 dated 2015-03-01 and 0.2-12 dated 2016-06-24

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 XLConnect-0.2-12/XLConnect/NEWS                                                |   17 
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More information about XLConnect at CRAN
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Package timetools updated to version 1.8.0 with previous version 1.7.4 dated 2016-03-24

Title: Seasonal/Sequential (Instants/Durations, Even or not) Time Series
Description: Objects to manipulate sequential and seasonal time series. Sequential time series based on time instants and time durations are handled. Both can be regularly or unevenly spaced (overlapping durations are allowed). Only POSIX* format are used for dates and times. The following classes are provided : 'POSIXcti', 'POSIXctp', 'TimeIntervalDataFrame', 'TimeInstantDataFrame', 'SubtimeDataFrame' ; methods to switch from a class to another and to modify the time support of series (hourly time series to daily time series for instance) are also defined. Tools provided can be used for instance to handle environmental monitoring data (not always produced on a regular time base).
Author: Vladislav Navel
Maintainer: Vladislav Navel <vnavel@yahoo.fr>

Diff between timetools versions 1.7.4 dated 2016-03-24 and 1.8.0 dated 2016-06-24

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New package VetResearchLMM with initial version 0.1.0
Package: VetResearchLMM
Type: Package
Title: Linear Mixed Models - An Introduction with Applications in Veterinary Research
Version: 0.1.0
Authors@R: c( person(c("Muhammad", "Yaseen"), email = "myaseen208@gmail.com", role = c("aut", "cre")) , person(c("Luc", "Duchateau"), email = "Luc.Duchateau@ugent.be", role = "ctb") , person(c("Paul", "Janssen"), email = "paul.janssen@uhasselt.be", role = "ctb") , person(c("John", "Rowlands"), email = " ", role = "ctb") )
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
Description: R Codes and Datasets for Duchateau, L. and Janssen, P. and Rowlands, G. J. (1998). Linear Mixed Models. An Introduction with applications in Veterinary Research. International Livestock Research Institute.
Depends: R (>= 3.1)
Imports: ggplot2, lme4, nlme, lmerTest, multcomp
License: GPL-2
URL:
LazyData: TRUE
RoxygenNote: 5.0.1.9000
NeedsCompilation: no
Packaged: 2016-06-23 03:40:45 UTC; yaseen
Author: Muhammad Yaseen [aut, cre], Luc Duchateau [ctb], Paul Janssen [ctb], John Rowlands [ctb]
Repository: CRAN
Date/Publication: 2016-06-24 09:53:26

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Package StanHeaders updated to version 2.10.0-2 with previous version 2.10.0 dated 2016-06-22

Title: C++ Header Files for Stan
Description: The C++ header files of the Stan project are provided by this package, but it contains no R code, vignettes, or function documentation. There is a shared object containing part of the CVODES library, but it is not accessible from R. StanHeaders is only useful for developers who want to utilize the LinkingTo directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or variational methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, templated statistical and linear algebra functions that can handle the automatically differentiable scalar types (and doubles, ints, etc.), and a parser for the Stan language. The 'rstan' package provides user-facing R functions to parse, compile, test, estimate, and analyze Stan models.
Author: Ben Goodrich [cre, aut], Joshua Pritikin [ctb], Andrew Gelman [aut], Bob Carpenter [aut], Matt Hoffman [aut], Daniel Lee [aut], Michael Betancourt [aut], Marcus Brubaker [aut], Jiqiang Guo [aut], Peter Li [aut], Allen Riddell [aut], Marco Inacio [aut], Mitzi Morris [aut], Jeffrey Arnold [aut], Rob Goedman [aut], Brian Lau [aut], Rob Trangucci [aut], Jonah Gabry [aut], Alp Kucukelbir [aut], Robert Grant [aut], Dustin Tran [aut], Michael Malecki [aut], Yuanjun Gao [aut], Trustees of Columbia University [cph], Lawrence Livermore National Security [cph] (CVODES), The Regents of the University of California [cph] (CVODES), Southern Methodist University [cph] (CVODES)
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>

Diff between StanHeaders versions 2.10.0 dated 2016-06-22 and 2.10.0-2 dated 2016-06-24

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New package synthACS with initial version 0.4.4
Package: synthACS
Title: Synthetic Microdata and Spatial MicroSimulation Modeling for ACS Data
Version: 0.4.4
Authors@R: person("Alex", "Whitworth",,email = "whitworth.alex@gmail.com", c("aut", "cre"))
Description: Firstly provides a wrapper to library(acs) to access numerous American Community Survey (ACS) base tables which may be of interest to many researchers. Secondly, it builds synthetic micro-datasets of ACS data at any specified geographic level with 10 default individual attributes. Thirdly, the package provides functionality for users to add additional ACS & non-ACS data attributes to micro-datasets based on macro population characteristics. And finally, the package also conducts spatial microsimulation modeling (SMSM) via simulated annealing. SMSM is conducted in parallel by default.
Depends: R (>= 3.2.3), acs (>= 1.2), data.table (>= 1.9.6)
Imports: Rcpp
License: MIT + file LICENSE
LazyData: true
Suggests: testthat, tigris (>= 0.3), sp (>= 1.2), leaflet (>= 1.0), shiny (>= 0.13), rgdal (>= 1.1)
RoxygenNote: 5.0.1
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2016-06-23 17:55:20 UTC; awhitworth
Author: Alex Whitworth [aut, cre]
Maintainer: Alex Whitworth <whitworth.alex@gmail.com>
Repository: CRAN
Date/Publication: 2016-06-24 09:53:55

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Package ranger updated to version 0.5.0 with previous version 0.4.0 dated 2016-04-07

Title: A Fast Implementation of Random Forests
Description: A fast implementation of Random Forests, particularly suited for high dimensional data. Ensembles of classification, regression, survival and probability prediction trees are supported. Data from genome-wide association studies can be analyzed efficiently. In addition to data frames, datasets of class 'gwaa.data' (R package 'GenABEL') can be directly analyzed.
Author: Marvin N. Wright
Maintainer: Marvin N. Wright <wright@imbs.uni-luebeck.de>

Diff between ranger versions 0.4.0 dated 2016-04-07 and 0.5.0 dated 2016-06-24

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Package randomLCA updated to version 1.0-9 with previous version 1.0-8 dated 2016-05-20

Title: Random Effects Latent Class Analysis
Description: Fits standard and random effects latent class models. The single level random effects model is described in Qu et al <doi:10.2307/2533043> and the two level random effects model in Beath and Heller <doi:10.1177/1471082X0800900302>. Examples are given for their use in diagnostic testing.
Author: Ken Beath [aut, cre]
Maintainer: Ken Beath <ken.beath@mq.edu.au>

Diff between randomLCA versions 1.0-8 dated 2016-05-20 and 1.0-9 dated 2016-06-24

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Package overlapping updated to version 1.3 with previous version 1.2 dated 2016-02-08

Title: Estimation of Overlapping in Empirical Distributions
Description: Functions for estimating the overlapping area of two or more empirical distributions.
Author: Massimiliano Pastore
Maintainer: Massimiliano Pastore <massimiliano.pastore@unipd.it>

Diff between overlapping versions 1.2 dated 2016-02-08 and 1.3 dated 2016-06-24

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Package mirtCAT updated to version 0.9 with previous version 0.8 dated 2016-02-24

Title: Computerized Adaptive Testing with Multidimensional Item Response Theory
Description: Provides tools to generate an HTML interface for creating adaptive and non-adaptive educational and psychological tests using the shiny package. Suitable for applying unidimensional and multidimensional computerized adaptive tests using item response theory methodology and for creating simple questionnaires forms to collect response data directly in R. Package also contains tools useful for performing Monte Carlo simulations for studying the behaviour of computerized adaptive test banks.
Author: Phil Chalmers [aut, cre, cph]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

Diff between mirtCAT versions 0.8 dated 2016-02-24 and 0.9 dated 2016-06-24

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More information about mirtCAT at CRAN
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Package mirt updated to version 1.18 with previous version 1.17.1 dated 2016-04-27

Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polytomous response data using unidimensional and multidimensional latent trait models under the Item Response Theory paradigm. Exploratory and confirmatory models can be estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier analyses are available for modeling item testlets. Multiple group analysis and mixed effects designs also are available for detecting differential item and test functioning as well as modelling item and person covariates.
Author: Phil Chalmers [aut, cre, cph], Joshua Pritikin [ctb], Alexander Robitzsch [ctb], Mateusz Zoltak [ctb], KwonHyun Kim [ctb], Carl F. Falk [ctb], Adam Meade [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

Diff between mirt versions 1.17.1 dated 2016-04-27 and 1.18 dated 2016-06-24

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 NAMESPACE                           |    2 
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New package invgamma with initial version 0.0
Package: invgamma
Type: Package
Title: The Inverse Gamma Distribution
Version: 0.0
URL: https://github.com/dkahle/invgamma
BugReports: https://github.com/dkahle/invgamma/issues
Authors@R: c( person("David", "Kahle", email = "david.kahle@gmail.com", role = c("aut", "cre", "cph")), person("James", "Stamey", email = "james_stamey@baylor.edu", role = c("aut", "cph")) )
Description: Standard distribution functions for the inverse gamma distribution, wrapping those for the gamma distribution that are already provided in the stats package.
License: GPL-2
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-23 20:29:09 UTC; david_kahle
Author: David Kahle [aut, cre, cph], James Stamey [aut, cph]
Maintainer: David Kahle <david.kahle@gmail.com>
Repository: CRAN
Date/Publication: 2016-06-24 09:53:42

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Package future updated to version 1.0.0 with previous version 0.15.0 dated 2016-06-14

Title: A Future API for R
Description: A Future API for R is provided. In programming, a future is an abstraction for a value that may be available at some point in the future. The state of a future can either be unresolved or resolved. As soon as it is resolved, the value is available. Futures are useful constructs in for instance concurrent evaluation, e.g. parallel processing and distributed processing on compute clusters. The purpose of this package is to provide a lightweight interface for using futures in R. Functions 'future()' and 'value()' exist for creating futures and requesting their values, e.g. 'f <- future({ mandelbrot(-0.75, 0, side=3) })' and 'v <- value(f)'. The 'resolved()' function can be used to check if a future is resolved or not. An infix assignment operator '%<-%' exists for creating futures whose values are accessible by the assigned variables (as promises), e.g. 'v %<-% { mandelbrot(-0.75, 0, side=3) }'. This package implements synchronous "lazy" and "eager" futures, and asynchronous "multicore", "multisession" and ad hoc "cluster" futures. Globals variables and functions are automatically identified and exported. Required packages are attached in external R sessions whenever needed. All types of futures are designed to behave the same such that the exact same code work regardless of futures used or number of cores, background sessions or cluster nodes available. Additional types of futures are provided by other packages enhancing this package.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

Diff between future versions 0.15.0 dated 2016-06-14 and 1.0.0 dated 2016-06-24

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Package DrBats updated to version 0.1.4 with previous version 0.1.3 dated 2016-05-18

Title: Data Representation: Bayesian Approach That's Sparse
Description: Feed longitudinal data into a Bayesian Latent Factor Model to obtain a low-rank representation. Parameters are estimated using a Hamiltonian Monte Carlo algorithm with STAN. See G. Weinrott, B. Fontez, N. Hilgert and S. Holmes, "Bayesian Latent Factor Model for Functional Data Analysis", Actes des JdS 2016.
Author: Gabrielle Weinrott [aut, cre], Brigitte Charnomordic [aut], Benedicte Fontez [aut], Nadine Hilgert [aut], Susan Holmes [aut]
Maintainer: Gabrielle Weinrott <gabrielle.weinrott@supagro.inra.fr>

Diff between DrBats versions 0.1.3 dated 2016-05-18 and 0.1.4 dated 2016-06-24

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Package DBEST updated to version 1.3 with previous version 1.2 dated 2016-06-15

Title: Detecting Breakpoints and Estimating Segments in Trend
Description: A program for analyzing vegetation time series, with two algorithms: 1) change detection algorithm that detects trend changes, determines their type (abrupt or non-abrupt), and estimates their timing, magnitude, number, and direction; 2) generalization algorithm that simplifies the temporal trend into main features. The user can set the number of major breakpoints or magnitude of greatest changes of interest for detection, and can control the generalization process by setting an additional parameter of generalization-percentage.
Author: Sadegh Jamali, Hristo Tomov
Maintainer: Hristo Tomov <tomov.hristo@gmail.com>

Diff between DBEST versions 1.2 dated 2016-06-15 and 1.3 dated 2016-06-24

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New package convey with initial version 0.1.0
Package: convey
Title: Income Concentration Analysis with Complex Survey Samples
Version: 0.1.0
Authors@R: c(person("Djalma", "Pessoa", email = "pessoad@gmail.com", role = c("aut","cre")), person("Anthony", "Damico", email= "ajdamico@gmail.com", role= "aut"), person("Guilherme", "Jacob", email= "guilhermejacob91@gmail.com", role= "aut"))
URL: https://github.com/djalmapessoa/convey
BugReports: https://github.com/djalmapessoa/convey/issues
Description: Variance estimation on indicators of income concentration and poverty using linearized or replication-based survey designs. Wrapper around the survey package.
Depends: R (>= 3.2.1)
Imports: survey, methods
License: GPL-3
LazyData: true
Suggests: testthat, knitr, rmarkdown, IC2, vardpoor, DBI, MonetDBLite, RODBC
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-23 19:06:24 UTC; owner
Author: Djalma Pessoa [aut, cre], Anthony Damico [aut], Guilherme Jacob [aut]
Maintainer: Djalma Pessoa <pessoad@gmail.com>
Repository: CRAN
Date/Publication: 2016-06-24 09:53:38

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Package ASMap updated to version 0.4-7 with previous version 0.4-5 dated 2015-08-17

Title: Linkage Map Construction using the MSTmap Algorithm
Description: Functions for Accurate and Speedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred 'R/qtl' objects. This includes extremely fast linkage map clustering and optimal marker ordering using 'MSTmap' (see Wu et al.,2008).
Author: Julian Taylor <julian.taylor@adelaide.edu.au>, David Butler <david.butler@daff.qld.gov.au>.
Maintainer: Julian Taylor <julian.taylor@adelaide.edu.au>

Diff between ASMap versions 0.4-5 dated 2015-08-17 and 0.4-7 dated 2016-06-24

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Package unfoldr updated to version 0.5.7 with previous version 0.5.6 dated 2016-06-22

Title: Stereological Unfolding for Spheroidal Particles
Description: Stereological unfolding as implemented in this package consists in the estimation of the joint size-shape-orientation distribution of spheroidal shaped particles based on the same measured quantities of corresponding planar section profiles. A single trivariate discretized version of the (stereological) integral equation in the case of prolate and oblate spheroids is solved numerically by the EM algorithm. The estimation of diameter distribution of spheres from planar sections (Wicksell's corpuscle problem) is also implemented. Further, the package provides routines for the simulation of a Poisson germ- grain process with either spheroids, spherocylinders or spheres as grains together with functions for planar sections. For the purpose of exact simulation a bivariate size-shape distribution is implemented.
Author: Markus Baaske [aut, cre], Felix Ballani [ctb]
Maintainer: Markus Baaske <markus.baaske@math.tu-freiberg.de>

Diff between unfoldr versions 0.5.6 dated 2016-06-22 and 0.5.7 dated 2016-06-24

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Package treeplyr updated to version 0.1.2 with previous version 0.1.1 dated 2016-03-31

Title: 'dplyr' Functionality for Matched Tree and Data Objects
Description: Matches phylogenetic trees and trait data, and allows simultaneous manipulation of the tree and data using 'dplyr'.
Author: Josef Uyeda
Maintainer: Josef Uyeda <josef.uyeda@gmail.com>

Diff between treeplyr versions 0.1.1 dated 2016-03-31 and 0.1.2 dated 2016-06-24

 DESCRIPTION              |   10 ++--
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Package precrec updated to version 0.4.0 with previous version 0.3.2 dated 2016-04-13

Title: Calculate Accurate Precision-Recall and Receiver Operator Characteristics Curves
Description: Accurate calculations and visualization of Precision-Recall and Receiver Operator Characteristics curves.
Author: Takaya Saito [aut, cre], Marc Rehmsmeier [aut]
Maintainer: Takaya Saito <takaya.saito@outlook.com>

Diff between precrec versions 0.3.2 dated 2016-04-13 and 0.4.0 dated 2016-06-24

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Package phytools updated to version 0.5-38 with previous version 0.5-20 dated 2016-03-06

Title: Phylogenetic Tools for Comparative Biology (and Other Things)
Description: Package contains various functions for phylogenetic analysis. This functionality is concentrated in the phylogenetic analysis of comparative data from species. For example, the package includes functions for Bayesian and ML ancestral state estimation; visual simulation of trait evolution; fitting models of trait evolution with multiple Brownian rates and correlations; visualizing discrete and continuous character evolution using colors or projections into trait space; identifying the location of a change in the rate of character evolution on the tree; fast Brownian motion simulation and simulation under several other models of continuous trait evolution; fitting a model of correlated binary trait evolution; locating the position of a fossil or an recently extinct lineage on a tree using continuous character data with ML; plotting lineage accumulation through time, including across multiple trees (such as a Bayesian posterior sample); conducting an analysis called stochastic character mapping, in which character histories for a discrete trait are sampled from their posterior probability distribution under a model; conducting a multiple (i.e., partial) Mantel test; fitting a phylogenetic regression model with error in predictor and response variables; conducting a phylogenetic principal components analysis, a phylogenetic regression, a reduced major axis regression, a phylogenetic canonical correlation analysis, and a phylogenetic ANOVA; projecting a tree onto a geographic map; simulating discrete character histories on the tree; and fitting a model in which a discrete character evolves under the threshold model. In addition to this phylogenetic comparative method functionality, the package also contains functions for a wide range of other purposes in phylogenetic biology. For instance, functionality in this package includes (but is not restricted to): adding taxa to a tree (including randomly, everywhere, or automatically to genera); generating all bi- and multi-furcating trees for a set of taxa; reducing a phylogeny to its backbone tree; dropping tips or adding tips to special types of phylogenetic trees; exporting a tree as an XML file; converting a tree with a mapped character to a tree with singleton nodes and one character state per edge; estimating a phylogeny using the least squares method; simulating birth-death trees under a range of conditions; rerooting trees; a wide range of visualizations of trees; and a variety of other manipulations and analyses that phylogenetic biologists may find useful for their research.
Author: Liam J. Revell
Maintainer: Liam J. Revell <liam.revell@umb.edu>

Diff between phytools versions 0.5-20 dated 2016-03-06 and 0.5-38 dated 2016-06-24

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Package lavaan.shiny updated to version 1.1 with previous version 1.0 dated 2016-03-04

Title: Latent Variable Analysis with Shiny
Description: Interactive shiny application for working with different kinds of latent variable analysis, with the 'lavaan' package. Graphical output for models are provided and different estimators are supported.
Author: W. Kyle Hamilton <kyle.hamilton@gmail.com>
Maintainer: W. Kyle Hamilton <kyle.hamilton@gmail.com>

Diff between lavaan.shiny versions 1.0 dated 2016-03-04 and 1.1 dated 2016-06-24

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Package gutenbergr updated to version 0.1.2 with previous version 0.1.1 dated 2016-05-16

Title: Download and Process Public Domain Works from Project Gutenberg
Description: Download and process public domain works in the Project Gutenberg collection. Includes metadata for all Project Gutenberg works, so that they can be searched and retrieved.
Author: David Robinson [aut, cre]
Maintainer: David Robinson <admiral.david@gmail.com>

Diff between gutenbergr versions 0.1.1 dated 2016-05-16 and 0.1.2 dated 2016-06-24

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Package camtrapR updated to version 0.99.2 with previous version 0.99.1 dated 2016-05-18

Title: Camera Trap Data Management and Preparation of Occupancy and Spatial Capture-Recapture Analyses
Description: Management of and data extraction from camera trap photographs in wildlife studies. The package provides a workflow for storing and sorting camera trap photographs, computes record databases and detection/non-detection matrices for occupancy and spatial capture-recapture analyses with great flexibility. In addition, it provides simple mapping functions (number of species, number of independent species detections by station) and can visualise activity data.
Author: Juergen Niedballa [aut, cre], Alexandre Courtiol [aut], Rahel Sollmann [aut], John Mathai [ctb], Seth Timothy Wong [ctb], An The Truong Nguyen [ctb], Azlan bin Mohamed [ctb], Andrew Tilker [ctb], Andreas Wilting [ctb, ths]
Maintainer: Juergen Niedballa <niedballa@izw-berlin.de>

Diff between camtrapR versions 0.99.1 dated 2016-05-18 and 0.99.2 dated 2016-06-24

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 22 files changed, 585 insertions(+), 220 deletions(-)

More information about camtrapR at CRAN
Permanent link

Package binaryLogic updated to version 0.3.5 with previous version 0.3.4 dated 2016-03-29

Title: Binary Logic
Description: Convert to binary numbers (Base2). Shift, rotate, summary. Based on logical vector.
Author: Daniel Dörrhöfer <ddo@openmailbox.org>
Maintainer: Daniel Dörrhöfer <ddo@openmailbox.org>

Diff between binaryLogic versions 0.3.4 dated 2016-03-29 and 0.3.5 dated 2016-06-24

 DESCRIPTION                        |    6 ++--
 MD5                                |    8 ++---
 R/BinaryS3.R                       |   26 ++++++++++++++++--
 README.md                          |   52 +++++++++++++++++++------------------
 tests/testthat/test-binOperators.R |   19 +++++++++++++
 5 files changed, 77 insertions(+), 34 deletions(-)

More information about binaryLogic at CRAN
Permanent link

Thu, 23 Jun 2016

Package trackeR updated to version 0.0.3 with previous version 0.0.1 dated 2016-02-11

Title: Infrastructure for Running and Cycling Data from GPS-Enabled Tracking Devices
Description: The aim of this package is to provide infrastructure for handling running and cycling data from GPS-enabled tracking devices. After extraction and appropriate manipulation of the training or competition attributes, the data are placed into session-based and unit-aware data objects of class trackeRdata (S3 class). The information in the resulting data objects can then be visualised, summarised, and analysed through corresponding flexible and extensible methods.
Author: Hannah Frick [aut, cre], Ioannis Kosmidis [aut]
Maintainer: Hannah Frick <h.frick@ucl.ac.uk>

Diff between trackeR versions 0.0.1 dated 2016-02-11 and 0.0.3 dated 2016-06-23

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 64 files changed, 1523 insertions(+), 591 deletions(-)

More information about trackeR at CRAN
Permanent link

Package swirl updated to version 2.4.2 with previous version 2.4.1 dated 2016-04-14

Title: Learn R, in R
Description: Use the R console as an interactive learning environment. Users receive immediate feedback as they are guided through self-paced lessons in data science and R programming.
Author: Sean Kross [aut, cre], Nick Carchedi [aut], Bill Bauer [aut], Gina Grdina [aut], Filip Schouwenaars [ctb], Wush Wu [ctb]
Maintainer: Sean Kross <sean@seankross.com>

Diff between swirl versions 2.4.1 dated 2016-04-14 and 2.4.2 dated 2016-06-23

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 7 files changed, 56 insertions(+), 26 deletions(-)

More information about swirl at CRAN
Permanent link

Package RMThreshold updated to version 1.1 with previous version 1.0 dated 2016-06-21

Title: Signal-Noise Separation in Random Matrices by using Eigenvalue Spectrum Analysis
Description: An algorithm which can be used to determine an objective threshold for signal-noise separation in large random matrices (correlation matrices, mutual information matrices, network adjacency matrices) is provided. The package makes use of the results of Random Matrix Theory (RMT). The algorithm increments a suppositional threshold monotonically, thereby recording the eigenvalue spacing distribution of the matrix. According to RMT, that distribution undergoes a characteristic change when the threshold properly separates signal from noise. By using the algorithm, the modular structure of a matrix - or of the corresponding network - can be unraveled.
Author: Uwe Menzel
Maintainer: Uwe Menzel <uwemenzel@gmail.com>

Diff between RMThreshold versions 1.0 dated 2016-06-21 and 1.1 dated 2016-06-23

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 15 files changed, 41 insertions(+), 51 deletions(-)

More information about RMThreshold at CRAN
Permanent link

New package shinyDND with initial version 0.1.0
Package: shinyDND
Type: Package
Title: Shiny Drag-n-Drop
Version: 0.1.0
Date: 2016-06-23
Authors@R: c(person("Aaron", "Hoffer", email="ahoffer42@gmail.com", role=c("aut","cre")))
Maintainer: Aaron Hoffer <ahoffer42@gmail.com>
Description: Add functionality to create drag and drop div elements in shiny.
DisplayMode: Showcase
Imports: shiny (>= 0.11), htmltools
License: GPL-3
URL: https://github.com/ayayron/shinydnd
BugReports: https://github.com/ayayron/shinydnd/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-06-23 16:37:23 UTC; ahoffer
Author: Aaron Hoffer [aut, cre]
Repository: CRAN
Date/Publication: 2016-06-23 19:40:32

More information about shinyDND at CRAN
Permanent link

Package RMark updated to version 2.2.0 with previous version 2.1.14 dated 2015-12-15

Title: R Code for Mark Analysis
Description: An interface to the software package MARK that constructs input files for MARK and extracts the output. MARK was developed by Gary White and is freely available at (http://www.phidot.org/software/mark/downloads/) but is not open source.
Author: Jeff Laake <jeff.laake@noaa.gov> with code contributions from Eldar Rakhimberdiev, Ben Augustine and Daniel Turek, and example data and analysis from Bret Collier, Jay Rotella, David Pavlacky,Andrew Paul and Luke Eberhart- Phillips.
Maintainer: Jeff Laake <Jeff.Laake@noaa.gov>

Diff between RMark versions 2.1.14 dated 2015-12-15 and 2.2.0 dated 2016-06-23

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More information about RMark at CRAN
Permanent link

Package randomizeR updated to version 1.3 with previous version 1.2.0 dated 2016-03-11

Title: Randomization for Clinical Trials
Description: This tool enables the user to choose a randomization procedure based on sound scientific criteria. It comprises the generation of randomization sequences as well the assessment of randomization procedures based on carefully selected criteria. Furthermore, randomizeR provides a function for the comparison of randomization procedures.
Author: David Schindler [aut], Diane Uschner [aut, cre], Martin Manolov [ctb], Thi Mui Pham [ctb], Ralf-Dieter Hilgers [aut, ths], Nicole Heussen [aut, ths]
Maintainer: Diane Uschner <duschner@ukaachen.de>

Diff between randomizeR versions 1.2.0 dated 2016-03-11 and 1.3 dated 2016-06-23

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More information about randomizeR at CRAN
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Package R2HTML updated to version 2.3.2 with previous version 2.3.1 dated 2014-10-04

Title: HTML Exportation for R Objects
Description: Includes HTML function and methods to write in an HTML file. Thus, making HTML reports is easy. Includes a function that allows redirection on the fly, which appears to be very useful for teaching purpose, as the student can keep a copy of the produced output to keep all that he did during the course. Package comes with a vignette describing how to write HTML reports for statistical analysis. Finally, a driver for 'Sweave' allows to parse HTML flat files containing R code and to automatically write the corresponding outputs (tables and graphs).
Author: Eric Lecoutre [aut], Milan Bouchet-Valat [cre, ctb], Thomas Friedrichsmeier [ctb]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>

Diff between R2HTML versions 2.3.1 dated 2014-10-04 and 2.3.2 dated 2016-06-23

 DESCRIPTION            |   24 ++++++++++++------------
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 NAMESPACE              |    8 ++++++++
 NEWS                   |    3 +++
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 R/HTMLlme.R            |    2 +-
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 8 files changed, 38 insertions(+), 27 deletions(-)

More information about R2HTML at CRAN
Permanent link

Package LindleyR updated to version 1.1.0 with previous version 1.0.0 dated 2016-05-22

Title: The Lindley Distribution and Its Modifications
Description: Computes the probability density, the cumulative distribution, the quantile and the hazard rate functions and generates random deviates from the discrete and continuous Lindley distribution as well as for 19 of its modifications. It also generates censored random deviates from any probability distribution available in R.
Author: Josmar Mazucheli, Larissa B. Fernandes and Ricardo P. de Oliveira
Maintainer: Josmar Mazucheli <jmazucheli@gmail.com>

Diff between LindleyR versions 1.0.0 dated 2016-05-22 and 1.1.0 dated 2016-06-23

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 LindleyR-1.1.0/LindleyR/R/EXPPLindley.R         |   72 ++++----
 LindleyR-1.1.0/LindleyR/R/EXTILindley.R         |  202 ++++++++++++++----------
 LindleyR-1.1.0/LindleyR/R/EXTLindley.R          |  104 ++++++------
 LindleyR-1.1.0/LindleyR/R/EXTPLindley.R         |   42 ++--
 LindleyR-1.1.0/LindleyR/R/GAMLindley.R          |only
 LindleyR-1.1.0/LindleyR/R/GENILindley.R         |   90 +++++-----
 LindleyR-1.1.0/LindleyR/R/GENLindley.R          |   49 ++---
 LindleyR-1.1.0/LindleyR/R/ILindley.R            |   82 ++++-----
 LindleyR-1.1.0/LindleyR/R/Lindley.R             |   64 +++----
 LindleyR-1.1.0/LindleyR/R/LindleyE.R            |only
 LindleyR-1.1.0/LindleyR/R/MOLindley.R           |   53 +++---
 LindleyR-1.1.0/LindleyR/R/NWLindley.R           |   35 +---
 LindleyR-1.1.0/LindleyR/R/PLindley.R            |   67 +++----
 LindleyR-1.1.0/LindleyR/R/QLindley.R            |   62 +++----
 LindleyR-1.1.0/LindleyR/R/Slindley.R            |   70 ++++----
 LindleyR-1.1.0/LindleyR/R/TLindley.R            |   24 +-
 LindleyR-1.1.0/LindleyR/R/WLindley.R            |   92 ++++------
 LindleyR-1.1.0/LindleyR/R/randcensor.R          |    2 
 LindleyR-1.1.0/LindleyR/data                    |only
 LindleyR-1.1.0/LindleyR/man/DLindley.Rd         |only
 LindleyR-1.1.0/LindleyR/man/DPLindley.Rd        |only
 LindleyR-1.1.0/LindleyR/man/DWLindley.Rd        |only
 LindleyR-1.1.0/LindleyR/man/EXPLindley.Rd       |   23 +-
 LindleyR-1.1.0/LindleyR/man/EXPPLindley.Rd      |   39 ++--
 LindleyR-1.1.0/LindleyR/man/EXTILindley.Rd      |   44 ++---
 LindleyR-1.1.0/LindleyR/man/EXTLindley.Rd       |   40 ++--
 LindleyR-1.1.0/LindleyR/man/EXTPLindley.Rd      |   14 -
 LindleyR-1.1.0/LindleyR/man/GAMLindley.Rd       |only
 LindleyR-1.1.0/LindleyR/man/GENILindley.Rd      |   35 ++--
 LindleyR-1.1.0/LindleyR/man/GENLindley.Rd       |   18 +-
 LindleyR-1.1.0/LindleyR/man/ILindley.Rd         |   27 +--
 LindleyR-1.1.0/LindleyR/man/Lindley.Rd          |   23 +-
 LindleyR-1.1.0/LindleyR/man/LindleyE.Rd         |only
 LindleyR-1.1.0/LindleyR/man/LindleyR-package.Rd |   51 +++---
 LindleyR-1.1.0/LindleyR/man/MOLindley.Rd        |   26 +--
 LindleyR-1.1.0/LindleyR/man/NWLindley.Rd        |   10 -
 LindleyR-1.1.0/LindleyR/man/PLindley.Rd         |   24 +-
 LindleyR-1.1.0/LindleyR/man/QLindley.Rd         |   15 -
 LindleyR-1.1.0/LindleyR/man/SLindley.Rd         |   25 +-
 LindleyR-1.1.0/LindleyR/man/TLindley.Rd         |    8 
 LindleyR-1.1.0/LindleyR/man/WLindley.Rd         |   30 ++-
 LindleyR-1.1.0/LindleyR/man/randcensor.Rd       |    2 
 51 files changed, 930 insertions(+), 830 deletions(-)

More information about LindleyR at CRAN
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