Mon, 14 Sep 2015

Package lintr updated to version 0.3.3 with previous version 0.3.2 dated 2015-09-08

Title: Static R Code Analysis
Description: Checks adherence to a given style, syntax errors and possible semantic issues. Supports on the fly checking of R code edited with Emacs, Vim and Sublime Text.
Author: Jim Hester [aut, cre]
Maintainer: Jim Hester <james.f.hester@gmail.com>

Diff between lintr versions 0.3.2 dated 2015-09-08 and 0.3.3 dated 2015-09-14

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New package wccsom with initial version 1.2.11
Package: wccsom
Version: 1.2.11
Title: SOM Networks for Comparing Patterns with Peak Shifts
Author: Ron Wehrens
Maintainer: Ron Wehrens <ron.wehrens@gmail.com>
Description: SOMs can be useful tools to group patterns containing several peaks. If peaks do not always occur at exactly the same position, classical distance measures cannot be used. This package provides SOM technology using the weighted crosscorrelation (WCC) distance.
License: GPL (>= 2)
Depends: class, MASS, kohonen
NeedsCompilation: yes
Packaged: 2015-09-07 15:17:28 UTC; ron
Repository: CRAN
Date/Publication: 2015-09-15 00:31:44

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Package RPANDA updated to version 1.1 with previous version 1.0 dated 2014-12-02

Title: Phylogenetic ANalyses of DiversificAtion
Description: Implements macroevolutionary analyses on phylogenetic trees. See Morlon et al. PLoSB (2010), Morlon et al. PNAS (2011), Condamine et al. Eco Lett (2013), Morlon et al. Eco Lett (2014), Manceau et al. (2015) and Lewitus & Morlon (submitted).
Author: Hélène Morlon [aut, cre, cph]
Maintainer: Hélène Morlon <morlon@biologie.ens.fr>

Diff between RPANDA versions 1.0 dated 2014-12-02 and 1.1 dated 2015-09-14

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Package OptGS updated to version 1.1.1 with previous version 1.1 dated 2015-07-28

Title: Near-Optimal and Balanced Group-Sequential Designs for Clinical Trials with Continuous Outcomes
Description: Functions to find near-optimal multi-stage designs for continuous outcomes.
Author: James Wason [aut, cre], John Burkardt [ctb]
Maintainer: James Wason <james.wason@mrc-bsu.cam.ac.uk>

Diff between OptGS versions 1.1 dated 2015-07-28 and 1.1.1 dated 2015-09-14

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Package MIIVsem updated to version 0.4 with previous version 0.3 dated 2015-06-26

Title: Model Implied Instrumental Variable (MIIV) Estimation of Structural Equation Models
Description: Functions for estimating structural equation models using model-implied instrumental variables.
Author: Zachary Fisher, Ken Bollen and Kathleen Gates.
Maintainer: Zachary Fisher <fish.zachary@gmail.com>

Diff between MIIVsem versions 0.3 dated 2015-06-26 and 0.4 dated 2015-09-14

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Package matchingR updated to version 1.1 with previous version 1.0.1 dated 2015-05-13

Title: Matching Algorithms in R and C++
Description: Computes matching algorithms efficiently using Rcpp. Implements the Gale-Shapley Algorithm to compute the stable matching for two-sided markets, such as the stable marriage problem and the college-admissions problem. Implements Irving's Algorithm for the stable roommate problem. Implements the top trading cycle algorithm for the indivisible goods trading problem.
Author: Jan Tilly [aut, cre], Nick Janetos [aut]
Maintainer: Jan Tilly <jtilly@econ.upenn.edu>

Diff between matchingR versions 1.0.1 dated 2015-05-13 and 1.1 dated 2015-09-14

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Package manifestoR updated to version 1.0-5 with previous version 1.0-4 dated 2015-07-16

Title: Access and Process Data and Documents of the Manifesto Project
Description: Provides access to coded election programmes from the Manifesto Corpus and to the Manifesto Project's Main Dataset. The Manifesto Project (https://manifesto-project.wzb.eu) collects and analyses election programmes across time and space to measure the political preferences of parties. The Manifesto Corpus contains the collected and annotated election programmes in the Corpus format of the package 'tm' to enable easy use of text processing and text mining functionality. Specific functions for scaling of coded political texts are included.
Author: Jirka Lewandowski [aut, cre], Nicolas Merz [aut], Sven Regel [ctb], Pola Lehmann [ctb]
Maintainer: Jirka Lewandowski <jirka.lewandowski@wzb.eu>

Diff between manifestoR versions 1.0-4 dated 2015-07-16 and 1.0-5 dated 2015-09-14

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Package installr updated to version 0.17.0 with previous version 0.16.0 dated 2015-06-13

Title: Using R to Install Stuff (Such As: R, Rtools, RStudio, Git, and More!)
Description: R is great for installing software. Through the 'installr' package you can automate the updating of R (on Windows, using updateR()) and install new software. Software installation is initiated through a GUI (just run installr()), or through functions such as: install.Rtools(), install.pandoc(), install.git(), and many more. The updateR() command performs the following: finding the latest R version, downloading it, running the installer, deleting the installation file, copy and updating old packages to the new R installation.
Author: Tal Galili [aut, cre, cph] (http://www.r-statistics.com), Barry Rowlingson [ctb], Boris Hejblum [ctb], Dason [ctb], Felix Schonbrodt [ctb], G. Grothendieck [ctb], GERGELY DAROCZI [ctb], Heuristic Andrew [ctb], James [ctb] (http://stackoverflow.com/users/269476/james), Thomas Leeper [ctb] (http://thomasleeper.com/), VitoshKa [ctb], Yihui Xie [ctb] (http://yihui.name), Michael Friendly [ctb] (http://datavis.ca/), Kornelius Rohmeyer [ctb] (http://algorithm-forge.com/techblog/), Dieter Menne [ctb], Tyler Hunt [ctb] (https://github.com/JackStat), Takekatsu Hiramura [ctb] (https://github.com/hiratake55), Berry Boessenkool [ctb] (https://github.com/BerryBoessenkool)
Maintainer: Tal Galili <tal.galili@gmail.com>

Diff between installr versions 0.16.0 dated 2015-06-13 and 0.17.0 dated 2015-09-14

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Package h2o updated to version 3.2.0.1 with previous version 3.0.0.30 dated 2015-07-22

Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source math engine for big data that computes parallel distributed machine learning algorithms such as generalized linear models, gradient boosting machines, random forests, and neural networks (deep learning) within various cluster environments.
Author: Spencer Aiello, Tom Kraljevic and Petr Maj, with contributions from the H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>

Diff between h2o versions 3.0.0.30 dated 2015-07-22 and 3.2.0.1 dated 2015-09-14

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New package grpregOverlap with initial version 1.0-1
Package: grpregOverlap
Type: Package
Title: Penalized Regression Models with Overlapping Grouped Covariates
Version: 1.0-1
Date: 2015-09-12
Author: Yaohui Zeng, Patrick Breheny
Maintainer: Yaohui Zeng <yaohui-zeng@uiowa.edu>
Depends: R (>= 3.1.0), Matrix, grpreg
LazyData: true
Description: Fit the regularization path of linear, logistic or poisson models with overlapping grouped covariates based on the latent group lasso approach. Latent group MCP/SCAD as well as bi-level selection methods, namely the group exponential lasso and the composite MCP are also available. This package serves as an extension of R package 'grpreg' (by Dr. Patrick Breheny <patrick-breheny@uiowa.edu>) for grouped variable selection involving overlaps between groups.
License: GPL-2
Suggests: testthat
Packaged: 2015-09-14 14:33:18 UTC; yazeng
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-15 00:44:16

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New package ClusterStability with initial version 1.0.0
Package: ClusterStability
Type: Package
Depends: R (>= 2.2.4), Rcpp, clusterCrit, cluster, WeightedCluster
LinkingTo: Rcpp
Title: Assessment of Stability of Individual Object or Clusters in Partitioning Solutions
Version: 1.0.0
Date: 2015-09-14
Author: Etienne Lord, Francois-Joseph Lapointe, and Vladimir Makarenkov
Maintainer: Etienne Lord <m.etienne.lord@gmail.com>
Description: Allows one to assess the stability of individual objects, clusters and whole clustering solutions based on repeated runs of the K-means and K-medoids partitioning algorithms.
License: GPL-3
LazyLoad: yes
Packaged: 2015-09-14 19:10:00 UTC; etienne
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-09-15 01:01:29

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Package bclust updated to version 1.5 with previous version 1.4 dated 2013-01-27

Title: Bayesian Hierarchical Clustering Using Spike and Slab Models
Description: Builds a dendrogram using log posterior as a natural distance defined by the model and meanwhile waits the clustering variables. It is also capable to computing equivalent Bayesian discrimination probabilities. The adopted method suites small sample large dimension setting. The model parameter estimation maybe difficult, depending on data structure and the chosen distribution family.
Author: Vahid PARTOVI NIA and Anthony C. DAVISON
Maintainer: Vahid PARTOVI NIA <vpartovinia@gmail.com>

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Package viridis updated to version 0.2.5 with previous version 0.1 dated 2015-07-19

Title: Matplotlib Default Color Map
Description: Port of the new Matplotlib default color map ('viridis') to R. This color map is designed in such a way that it will analytically be perfectly perceptually-uniform, both in regular form and also when converted to black-and-white. It is also designed to be perceived by readers with the most common form of color blindness.
Author: Simon Garnier [aut, cre], Noam Ross [ctb, cph] (Continuous scale), Bob Rudis [ctb, cph] (Combined scales)
Maintainer: Simon Garnier <garnier@njit.edu>

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Package runjags updated to version 2.0.2-8 with previous version 2.0.1-4 dated 2015-04-14

Title: Interface Utilities, Model Templates, Parallel Computing Methods and Additional Distributions for MCMC Models in JAGS
Description: User-friendly interface utilities for MCMC models via Just Another Gibbs Sampler (JAGS), facilitating the use of parallel (or distributed) processors for multiple chains, automated control of convergence and sample length diagnostics, and evaluation of the performance of a model using drop-k validation or against simulated data. Template model specifications can be generated using a standard lme4-style formula interface to assist users less familiar with the BUGS syntax. A JAGS extension module provides additional distributions including the Pareto family of distributions, the DuMouchel prior and the half-Cauchy prior.
Author: Matthew Denwood [aut, cre], Martyn Plummer [cph] (Copyright holder of the code in /src/distributions/jags, src/distributions/DPar1.*, configure.ac, and original copyright holder of some modified code where indicated)
Maintainer: Matthew Denwood <md@sund.ku.dk>

Diff between runjags versions 2.0.1-4 dated 2015-04-14 and 2.0.2-8 dated 2015-09-14

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Package pmc updated to version 1.0.1 with previous version 1.0.0 dated 2015-06-26

Title: Phylogenetic Monte Carlo
Description: Monte Carlo based model choice for applied phylogenetics of continuous traits. Method described in Carl Boettiger, Graham Coop, Peter Ralph (2012) Is your phylogeny informative? Measuring the power of comparative methods, Evolution 66 (7) 2240-51. doi:10.1111/j.1558-5646.2011.01574.x.
Author: Carl Boettiger [aut, cre]
Maintainer: Carl Boettiger <cboettig@gmail.com>

Diff between pmc versions 1.0.0 dated 2015-06-26 and 1.0.1 dated 2015-09-14

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New package LinearRegressionMDE with initial version 1.0
Package: LinearRegressionMDE
Title: Minimum Distance Estimation in Linear Regression Model
Version: 1.0
Authors@R: person("Jiwoong", "Kim", email = "kimjiwo2@stt.msu.edu", role = c("aut", "cre"))
Description: Consider linear regression model Y = Xb + error where the distribution function of errors is unknown, but errors are independent and symmetrically distributed. The package contains a function named LRMDE which takes Y and X as input and returns minimum distance estimator of parameter b in the model.
Depends: R (>= 3.2.2)
License: GPL-2
LazyData: true
NeedsCompilation: no
Packaged: 2015-09-14 05:44:03 UTC; Jason
Author: Jiwoong Kim [aut, cre]
Maintainer: Jiwoong Kim <kimjiwo2@stt.msu.edu>
Repository: CRAN
Date/Publication: 2015-09-14 09:12:47

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New package immer with initial version 0.1-1
Package: immer
Type: Package
Title: Item Response Models for Multiple Ratings
Version: 0.1-1
Date: 2015-09-13
Author: Alexander Robitzsch [aut, cre], Jan Steinfeld [aut]
Maintainer: Alexander Robitzsch <a.robitzsch@bifie.at>
Description: Implements some item response models for multiple ratings, including the hierarchical rater model, conditional maximum likelihood estimation of linear logistic partial credit model and a wrapper function to the commercial FACETS program.
Depends: R (>= 3.0-0)
Imports: methods, stats, graphics, Rcpp, coda, CDM, sirt, psychotools
Suggests: irr, TAM, eRm
LinkingTo: Rcpp, RcppArmadillo
License: GPL (>= 2)
Packaged: 2015-09-13 17:52:32 UTC; robitzsch
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-09-14 09:12:50

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Package hwde updated to version 0.66 with previous version 0.65 dated 2015-08-06

Title: Models and Tests for Departure from Hardy-Weinberg Equilibrium and Independence Between Loci
Description: Fits models for genotypic disequilibria, as described in Huttley and Wilson (2000), Weir (1996) and Weir and Wilson (1986). Contrast terms are available that account for first order interactions between loci. Also implements, for a single locus in a single population, a conditional exact test for Hardy-Weinberg equilibrium.
Author: John Maindonald, with \code{hwexact()} from Randall Johnson.
Maintainer: John Maindonald <John.Maindonald@anu.edu.au>

Diff between hwde versions 0.65 dated 2015-08-06 and 0.66 dated 2015-09-14

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New package AutoregressionMDE with initial version 1.0
Package: AutoregressionMDE
Title: Minimum Distance Estimation in Autoregressive Model
Version: 1.0
Authors@R: person("Jiwoong", "Kim", email = "kimjiwo2@stt.msu.edu", role = c("aut", "cre"))
Description: Consider autoregressive model of order p where the distribution function of innovation is unknown, but innovations are independent and symmetrically distributed. The package contains a function named ARMDE which takes X (vector of n observations) and p (order of the model) as input argument and returns minimum distance estimator of the parameters in the model.
Depends: R (>= 3.2.2)
License: GPL-2
LazyData: true
NeedsCompilation: no
Packaged: 2015-09-14 05:48:40 UTC; Jason
Author: Jiwoong Kim [aut, cre]
Maintainer: Jiwoong Kim <kimjiwo2@stt.msu.edu>
Repository: CRAN
Date/Publication: 2015-09-14 09:12:45

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