Sun, 10 Dec 2017

Package OpenMPController updated to version 0.2-5 with previous version 0.2-4 dated 2017-10-25

Title: Control Number of OpenMP Threads Dynamically
Description: The OpenMPController package provides a function omp_set_num_threads() to set the number of OpenMP threads to be used. This may be useful, for example, when linking against a vendor optimised BLAS/LAPACK library (e.g. the AMD Core Math Library), since the defaults used by those libraries may not be highly performant.
Author: Simon Guest <simon.guest@tesujimath.org>
Maintainer: Simon Guest <simon.guest@tesujimath.org>

Diff between OpenMPController versions 0.2-4 dated 2017-10-25 and 0.2-5 dated 2017-12-10

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Package tabularaster updated to version 0.4.0 with previous version 0.3.0 dated 2017-08-05

Title: Tidy Tools for 'Raster' Data
Description: Facilities to work with vector and raster data in efficient repeatable and systematic work flow. Missing functionality in existing packages is included here to allow extraction from raster data with 'simple features' and 'Spatial' types and to make extraction consistent and straightforward. Extract cell numbers from raster data and return the cells, values and weights as a data frame rather than as lists of matrices or vectors. The functions here allow spatial data to be used without special handling for the format currently in use.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>

Diff between tabularaster versions 0.3.0 dated 2017-08-05 and 0.4.0 dated 2017-12-10

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Package expss updated to version 0.8.4 with previous version 0.8.3 dated 2017-11-06

Title: Tables with Labels and Some Useful Functions from Spreadsheets and 'SPSS' Statistics
Description: Package provides tabulation functions with support for 'SPSS'-style labels, multiple / nested banners, weights, multiple-response variables and significance testing. There are facilities for nice output of tables in 'knitr', R notebooks, 'Shiny' and 'Jupyter' notebooks. Proper methods for labelled variables add value labels support to base R functions and to some functions from other packages. Additionally, the package offers useful functions for data processing in marketing research / social surveys - popular data transformation functions from 'SPSS' Statistics ('RECODE', 'COUNT', 'COMPUTE', 'DO IF', etc.) and 'Excel' ('COUNTIF', 'VLOOKUP', etc.). Package is intended to help people to move data processing from 'Excel'/'SPSS' to R.
Author: Gregory Demin [aut, cre]
Maintainer: Gregory Demin <gdemin@gmail.com>

Diff between expss versions 0.8.3 dated 2017-11-06 and 0.8.4 dated 2017-12-10

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Package dynCorr updated to version 1.1.0 with previous version 1.0.0 dated 2017-06-10

Title: Dynamic Correlation Package
Description: Computes dynamical correlation estimates and percentile bootstrap confidence intervals for pairs of longitudinal responses, including consideration of lags and derivatives.
Author: Joel Dubin [aut, cre], Mike Li [aut], Dandi Qiao [aut], Hans-Georg Müller [aut]
Maintainer: Joel Dubin <jdubin@uwaterloo.ca>

Diff between dynCorr versions 1.0.0 dated 2017-06-10 and 1.1.0 dated 2017-12-10

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Package lessR updated to version 3.6.7 with previous version 3.6.6 dated 2017-09-09

Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. A confirmatory factor analysis of multiple indicator measurement models is available, as are pedagogical routines for data simulation such as for the Central Limit Theorem. Compatible with 'RStudio' and 'knitr' including generation of R markdown instructions for interpretative output.
Author: David W. Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>

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Package caret updated to version 6.0-78 with previous version 6.0-77 dated 2017-09-07

Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models.
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre Williams, Chris Keefer, Allan Engelhardt, Tony Cooper, Zachary Mayer, Brenton Kenkel, the R Core Team, Michael Benesty, Reynald Lescarbeau, Andrew Ziem, Luca Scrucca, Yuan Tang, Can Candan, and Tyler Hunt.
Maintainer: Max Kuhn <mxkuhn@gmail.com>

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Package Brundle updated to version 1.0.7 with previous version 1.0.5 dated 2017-09-19

Title: Normalisation Tools for Inter-Condition Variability of ChIP-Seq Data
Description: Inter-sample condition variability is a key challenge of normalising ChIP-seq data. This implementation uses either spike-in or a second factor as a control for normalisation. Input can either be from 'DiffBind' or a matrix formatted for 'DESeq2'. The output is either a 'DiffBind' object or the default 'DESeq2' output. Either can then be processed as normal. Supporting manuscript Guertin, Markowetz and Holding (2017) <doi:10.1101/182261>.
Author: Andrew N Holding
Maintainer: Andrew N Holding <andrew.holding@cruk.cam.ac.uk>

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Package rpostgis updated to version 1.4.0 with previous version 1.3.0 dated 2017-06-30

Title: R Interface to a 'PostGIS' Database
Description: Provides an interface between R and 'PostGIS'-enabled 'PostgreSQL' databases to transparently transfer spatial data. Both vector (points, lines, polygons) and raster data are supported in read and write modes. Also provides convenience functions to execute common procedures in 'PostgreSQL/PostGIS'.
Author: Mathieu Basille [aut], David Bucklin [aut, cre]
Maintainer: David Bucklin <david.bucklin@gmail.com>

Diff between rpostgis versions 1.3.0 dated 2017-06-30 and 1.4.0 dated 2017-12-10

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Package quantmod updated to version 0.4-12 with previous version 0.4-11 dated 2017-10-06

Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies.
Author: Jeffrey A. Ryan [aut, cph], Joshua M. Ulrich [cre, aut], Wouter Thielen [ctb], Paul Teetor [ctb]
Maintainer: Joshua M. Ulrich <josh.m.ulrich@gmail.com>

Diff between quantmod versions 0.4-11 dated 2017-10-06 and 0.4-12 dated 2017-12-10

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New package Rfmtool with initial version 1.2.2
Package: Rfmtool
Type: Package
Version: 1.2.2
Date: 2017-11-28
Title: Fuzzy Measure Tools
Authors@R: c(person("Gleb", "Beliakov", role = c("aut", "cre"), email = "gleb@deakin.edu.au"), person("Quan", "Vu", role = "ctb"), person("Andrei", "Kelarev", role = "ctb"), person("Michel", "Berkelaar", role = "ctb"), person("Kjell", "Eikland", role = "ctb"), person("Samuel E.", "Buttrey", role = "ctb"), person("Stefan I.", "Larimore", role = "ctb"), person("Timothy A.", "Davis", role = "ctb"), person("John", "Gilbert", role = "ctb"), person("Esmond", "Ng", role = "ctb") , person("Peter", "Notebaert", role = "ctb") , person("Richard", "Stallman", role = "ctb") , person("Jeroen", "Dirks", role = "ctb") )
Author: Gleb Beliakov [aut, cre], Quan Vu [ctb], Andrei Kelarev [ctb], Michel Berkelaar [ctb], Kjell Eikland [ctb], Samuel E. Buttrey [ctb], Stefan I. Larimore [ctb], Timothy A. Davis [ctb], John Gilbert [ctb], Esmond Ng [ctb], Peter Notebaert [ctb], Richard Stallman [ctb], Jeroen Dirks [ctb]
Maintainer: Gleb Beliakov <gleb@deakin.edu.au>
Depends: R (>= 2.9.2)
Suggests:
Description: Various tools for handling fuzzy measures, calculating Shapley value and interaction index, Choquet and Sugeno integrals, as well as fitting fuzzy measures to empirical data are provided. Construction of fuzzy measures from empirical data is done by solving a linear programming problem by using 'lpsolve' package, whose source in C adapted to the R environment is included. The description of the basic theory of fuzzy measures is in the manual in the Doc folder in this package.
License: LGPL-3
NeedsCompilation: yes
Copyright: Gleb Beliakov. The 'lpsolve' library and its parts are copyright to various holders, including Kjell Eikland, Michel Berkelaar, University of Florida, National Institute of Standards and Technology, Free Software Foundation, Inc.
Packaged: 2017-11-28 03:56:19 UTC; gleb
Repository: CRAN
Date/Publication: 2017-12-10 15:32:35 UTC

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Package refset updated to version 0.1.1 with previous version 0.1.0 dated 2014-12-16

Title: Subsets with Reference Semantics
Description: Provides subsets with reference semantics, i.e. subsets which automatically reflect changes in the original object, and which optionally update the original object when they are changed.
Author: "David Hugh-Jones" <davidhughjones@gmail.com>
Maintainer: "David Hugh-Jones" <davidhughjones@gmail.com>

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Package pdSpecEst updated to version 1.2.1 with previous version 1.2.0 dated 2017-12-09

Title: An Analysis Toolbox for Hermitian Positive Definite Matrices
Description: An implementation of data analysis tools for samples of symmetric or Hermitian positive definite matrices, such as collections of covariance matrices or spectral density matrices. The tools in this package can be used to perform (i) intrinsic manifold wavelet regression and clustering for curves (1D) or surfaces (2D) of Hermitian positive definite matrices, and (ii) exploratory data analysis and inference for samples of (curves of) Hermitian positive definite matrices by means of intrinsic manifold data depth and manifold rank-based hypothesis tests.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <j.chau@uclouvain.be>

Diff between pdSpecEst versions 1.2.0 dated 2017-12-09 and 1.2.1 dated 2017-12-10

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Package KenSyn updated to version 0.2 with previous version 0.1 dated 2017-11-21

Title: Knowledge Synthesis in Agriculture - From Experimental Network to Meta-Analysis
Description: Demo and datasets accompanying the book "Knowledge Synthesis: From Experimental Network to Meta-Analysis" (Makowski, Piraux and Brun, in preparation for December 2017).
Author: David Makowski (INRA) [aut], Francois Piraux (Arvalis) [aut], Francois Brun (ACTA) [aut, cre]
Maintainer: Francois Brun (ACTA) <francois.brun@acta.asso.fr>

Diff between KenSyn versions 0.1 dated 2017-11-21 and 0.2 dated 2017-12-10

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Package s2 updated to version 0.3-0 with previous version 0.1-1 dated 2016-11-04

Title: Google's S2 Library for Geometry on the Sphere
Description: R bindings for Google's s2 library for geometric calculations on the sphere.
Author: Ege Rubak [aut, cre], Jeroen Ooms [aut] (configure and cleanup script), Edzer Pebesma [aut] (Interface to sf), Google, Inc. [cph] (Original s2 source code)
Maintainer: Ege Rubak <rubak@math.aau.dk>

Diff between s2 versions 0.1-1 dated 2016-11-04 and 0.3-0 dated 2017-12-10

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Package ESTER updated to version 0.2.0 with previous version 0.1.0 dated 2017-10-16

Title: Efficient Sequential Testing with Evidence Ratios
Description: An implementation of sequential testing that uses evidence ratios computed from the weights of a set of models. These weights correspond either to Akaike weights computed from the Akaike Information Criterion (AIC) or the Bayesian Information Criterion (BIC) and following Burnham & Anderson (2004, <doi:10.1177/0049124104268644>) recommendations, or to pseudo-BMA weights computed from the WAIC or the LOO-IC of models fitted with 'brms' and following Yao et al. (2017, <arXiv:1704.02030v3>).
Author: Ladislas Nalborczyk [aut, cre] (0000-0002-7419-9855)
Maintainer: Ladislas Nalborczyk <ladislas.nalborczyk@gmail.com>

Diff between ESTER versions 0.1.0 dated 2017-10-16 and 0.2.0 dated 2017-12-10

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Package summarytools updated to version 0.8.0 with previous version 0.6.5 dated 2016-12-05

Title: Tools to Quickly and Neatly Summarize Data
Description: Data frame summaries, cross-tabulations, weight-enabled frequency tables and common univariate statistics in concise tables available in a variety of formats (plain ASCII, Rmarkdown and HTML). A good point- of-entry for exploring data, both for experienced and inexperienced R users.
Author: Dominic Comtois
Maintainer: Dominic Comtois <dominic.comtois@gmail.com>

Diff between summarytools versions 0.6.5 dated 2016-12-05 and 0.8.0 dated 2017-12-10

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Package RSNNS updated to version 0.4-10 with previous version 0.4-9 dated 2016-12-16

Title: Neural Networks using the Stuttgart Neural Network Simulator (SNNS)
Description: The Stuttgart Neural Network Simulator (SNNS) is a library containing many standard implementations of neural networks. This package wraps the SNNS functionality to make it available from within R. Using the 'RSNNS' low-level interface, all of the algorithmic functionality and flexibility of SNNS can be accessed. Furthermore, the package contains a convenient high-level interface, so that the most common neural network topologies and learning algorithms integrate seamlessly into R.
Author: Christoph Bergmeir [aut, cre, cph], José M. Benítez [ths], Andreas Zell [ctb] (Part of original SNNS development team), Niels Mache [ctb] (Part of original SNNS development team), Günter Mamier [ctb] (Part of original SNNS development team), Michael Vogt [ctb] (Part of original SNNS development team), Sven Döring [ctb] (Part of original SNNS development team), Ralf Hübner [ctb] (Part of original SNNS development team), Kai-Uwe Herrmann [ctb] (Part of original SNNS development team), Tobias Soyez [ctb] (Part of original SNNS development team), Michael Schmalzl [ctb] (Part of original SNNS development team), Tilman Sommer [ctb] (Part of original SNNS development team), Artemis Hatzigeorgiou [ctb] (Part of original SNNS development team), Dietmar Posselt [ctb] (Part of original SNNS development team), Tobias Schreiner [ctb] (Part of original SNNS development team), Bernward Kett [ctb] (Part of original SNNS development team), Martin Reczko [ctb] (Part of original SNNS external contributors), Martin Riedmiller [ctb] (Part of original SNNS external contributors), Mark Seemann [ctb] (Part of original SNNS external contributors), Marcus Ritt [ctb] (Part of original SNNS external contributors), Jamie DeCoster [ctb] (Part of original SNNS external contributors), Jochen Biedermann [ctb] (Part of original SNNS external contributors), Joachim Danz [ctb] (Part of original SNNS development team), Christian Wehrfritz [ctb] (Part of original SNNS development team), Patrick Kursawe [ctb] (Contributors to SNNS Version 4.3), Andre El-Ama [ctb] (Contributors to SNNS Version 4.3)
Maintainer: Christoph Bergmeir <c.bergmeir@decsai.ugr.es>

Diff between RSNNS versions 0.4-9 dated 2016-12-16 and 0.4-10 dated 2017-12-10

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Package phylotools updated to version 0.2.2 with previous version 0.1.2 dated 2011-08-18

Title: Phylogenetic Tools for Eco-Phylogenetics
Description: A collection of tools for building RAxML supermatrix using PHYLIP or aligned FASTA files. These functions will be useful for building large phylogenies using multiple markers.
Author: Jinlong Zhang [aut, cre], Nancai Pei [ctb], Xiangcheng Mi [ctb]
Maintainer: Jinlong Zhang <jinlongzhang01@gmail.com>

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Package meaRtools updated to version 1.0.2 with previous version 1.0.1 dated 2017-10-12

Title: Micro-Electro Array (MEA) Analysis
Description: Core algorithms for MEA spike train analysis, feature extraction, statistical analysis and plotting of multiple MEA recordings with multiple genotypes and treatments, published by Gelfman et al (2017) at <https://github.com/igm-team/meaRtools/>.
Author: Quanli Wang [aut, ctb], Sahar Gelfman [aut, ctb, cre], Diana Hall [aut, ctb], Ryan Dhindsa [aut, ctb], Matt Halvorsen [aut, ctb], Ellese Cotterill [aut, ctb], Tom Edinburgh [aut, ctb], Stephen J. Eglen [aut, ctb, ths]
Maintainer: Sahar Gelfman <sahar.gelfman@columbia.edu>

Diff between meaRtools versions 1.0.1 dated 2017-10-12 and 1.0.2 dated 2017-12-10

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Package JMcmprsk updated to version 0.9.3 with previous version 0.9.2 dated 2017-12-06

Title: Joint Models for Longitudinal Measurements and Competing Risks Failure Time Data
Description: Fit joint models of continuous or ordinal longitudinal data and time-to-event data with competing risks. For a detailed information, see Robert Elashoff, Gang li and Ning Li (2016, ISBN:9781439807828) ; Robert M. Elashoff,Gang Li and Ning Li (2008) <doi:10.1111/j.1541-0420.2007.00952.x> ; Ning Li, Robert Elashoff, Gang Li and Jeffrey Saver (2010) <doi:10.1002/sim.3798> .
Author: Hong Wang<wh@csu.edu.cn>, Ning Li<nli@biomath.ucla.edu> and Gang Li<vli@ucla.edu>
Maintainer: Hong Wang <wh@csu.edu.cn>

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Package yaImpute updated to version 1.0-29 with previous version 1.0-26 dated 2015-07-20

Title: Nearest Neighbor Observation Imputation and Evaluation Tools
Description: Performs nearest neighbor-based imputation using one or more alternative approaches to processing multivariate data. These include methods based on canonical correlation analysis, canonical correspondence analysis, and a multivariate adaptation of the random forest classification and regression techniques of Leo Breiman and Adele Cutler. Additional methods are also offered. The package includes functions for comparing the results from running alternative techniques, detecting imputation targets that are notably distant from reference observations, detecting and correcting for bias, bootstrapping and building ensemble imputations, and mapping results.
Author: Nicholas L. Crookston, Andrew O. Finley, John Coulston (Sunil Arya and David Mount for ANN)
Maintainer: Nicholas L. Crookston <ncrookston.fs@gmail.com>

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Package diffobj updated to version 0.1.8 with previous version 0.1.7 dated 2017-11-09

Title: Diffs for R Objects
Description: Generate a colorized diff of two R objects for an intuitive visualization of their differences.
Author: Brodie Gaslam [aut, cre], Michael B. Allen [ctb, cph] (Original C implementation of Myers Diff Algorithm)
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>

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Package ContaminatedMixt updated to version 1.3 with previous version 1.2 dated 2017-11-05

Title: Model-Based Clustering and Classification with the Multivariate Contaminated Normal Distribution
Description: Fits mixtures of multivariate contaminated normal distributions (with eigen-decomposed scale matrices) via the expectation conditional- maximization algorithm under a clustering or classification paradigm.
Author: Antonio Punzo, Angelo Mazza, Paul D. McNicholas
Maintainer: Angelo Mazza <a.mazza@unict.it>

Diff between ContaminatedMixt versions 1.2 dated 2017-11-05 and 1.3 dated 2017-12-10

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Package phmm (with last version 0.7-5) was removed from CRAN

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

2013-09-14 0.7-5
2012-04-03 0.7-4
2010-12-05 0.7-1
2010-01-06 0.6.3
2009-09-22 0.6.1
2009-09-03 0.6
2009-03-19 0.5
2009-03-16 0.4

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