Wed, 09 May 2012

Package mirt updated to version 0.2.4 with previous version 0.2.3 dated 2012-05-02

Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polychotomous response data using latent trait models under the Item Response Theory paradigm. Includes the multivariate two- and three-parameter logistic models, confirmatory bifactor analysis, polytomous exploratory and confirmatory item response models which may include polynomial or product constructed factors, and partially-compensatory item response modeling in conjunction with other IRT models.
Author: Phil Chalmers
Maintainer: Phil Chalmers

Diff between mirt versions 0.2.3 dated 2012-05-02 and 0.2.4 dated 2012-05-09

 DESCRIPTION                |    6 
 MD5                        |   36 
 NEWS                       |   16 
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 20 files changed, 1439 insertions(+), 1396 deletions(-)

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Package rSFA updated to version 1.01 with previous version 1.00 dated 2012-01-29

Title: Slow Feature Analysis in R
Description: Slow Feature Analysis in R, ported to R based on the matlab versions SFA toolkit 1.0 by Pietro Berkes and SFA toolkit 2.8 by Wolfgang Konen for matlab.
Author: Wolfgang Konen , Martin Zaefferer, Patrick Koch; Bug hunting and testing by Ayodele Fasika, Ashwin Kumar, Prawyn Jebakumar
Maintainer: Martin Zaefferer

Diff between rSFA versions 1.00 dated 2012-01-29 and 1.01 dated 2012-05-09

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New package qtutils with initial version 0.1-2
Package: qtutils
Version: 0.1-2
Title: Miscellaneous Qt-based utilities
Author: Deepayan Sarkar
Depends: R (>= 2.14.0), qtbase
Suggests: xtable
Imports: qtbase
LinkingTo: qtbase
Maintainer: Deepayan Sarkar
Description: Miscellaneous Qt-based tools for R
URL: http://qtinterfaces.r-forge.r-project.org
License: LGPL (>= 2)
Packaged: 2012-05-09 13:15:56 UTC; deepayan
Repository: CRAN
Date/Publication: 2012-05-09 13:25:44

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Package nutshellDE updated to version 1.0-2 with previous version 1.0-1 dated 2011-02-03

Title: Beispieldaten zu "R in a Nutshell" [deutsche Ausgabe]
Description: Alle Datensätze und eine kleine Auswahl Hilfsfunktionen, die als Beispiele in "R in a Nutshell" [deutsche Ausgabe] des O'Reilly Verlags verwendet werden (ISBN 978-3-89721-649-5). WICHTIG: Beim ersten Laden des Pakets nach der Installation kann es etwas dauern, bis R zur Eingabezeile zurückkehrt. Nähere Informationen erhalten Sie im Abschnitt "Initialisierung" der Dokumentation.
Author: Joseph Adler (Autor des nutshell-Pakets); Jörg Beyer (deutsche Übersetzung und Bearbeitung; ergänzender Code).
Maintainer: Christine Haite

Diff between nutshellDE versions 1.0-1 dated 2011-02-03 and 1.0-2 dated 2012-05-09

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Package cccd updated to version 1.02 with previous version 1.01 dated 2012-04-17

Title: Class Cover Catch Digraphs
Description: Class Cover Catch Digraphs, neighborhood graphs, and relatives.
Author: David J. Marchette,
Maintainer: David J. Marchette,

Diff between cccd versions 1.01 dated 2012-04-17 and 1.02 dated 2012-05-09

 DESCRIPTION |   10 +++++-----
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Package catR updated to version 2.3 with previous version 2.2 dated 2012-03-16

Title: Procedures to generate IRT adaptive tests (CAT)
Description: The catR package allows the generation of response patterns under computerized adaptive testing (CAT) framework, with the choice of several starting rules, next item selection routines, stopping rules and ability estimators. Control methods for item exposure and content balancing are also included.
Author: David Magis (U Liege, Belgium), Gilles Raiche (UQAM, Canada)
Maintainer: David Magis

Diff between catR versions 2.2 dated 2012-03-16 and 2.3 dated 2012-05-09

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Package orloca updated to version 4.0 with previous version 3.2 dated 2010-05-26

Title: The package deals with Operations Research LOCational Analysis models
Description: This version of the package deals with the min-sum location problem, also known as Fermat--Weber problem. The min-sum location problem search for a point such that the weighted sum of the distances to the demand points are minimized.
Author: Fernando Fernandez-Palacin and Manuel Munoz-Marquez
Maintainer: Manuel Munoz-Marquez

Diff between orloca versions 3.2 dated 2010-05-26 and 4.0 dated 2012-05-09

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Package flexmix updated to version 2.3-8 with previous version 2.3-7 dated 2012-03-21

Title: Flexible Mixture Modeling
Description: FlexMix implements a general framework for finite mixtures of regression models using the EM algorithm. FlexMix provides the E-step and all data handling, while the M-step can be supplied by the user to easily define new models. Existing drivers implement mixtures of standard linear models, generalized linear models and model-based clustering.
Author: Friedrich Leisch and Bettina Gruen
Maintainer: Bettina Gruen

Diff between flexmix versions 2.3-7 dated 2012-03-21 and 2.3-8 dated 2012-05-09

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New package TCC with initial version 0.2
Package: TCC
Version: 0.2
Date: 2012-05-07
Title: TCC: tag count comparison package
Author: Koji Kadota, Tomoaki Nishiyama, Kentaro Shimizu
Maintainer: Tomoaki Nishiyama
Description: This package provides normalization method of tag count data by TMM-bayseq-TMM pipeline. Expected application includes RNA-seq, SAGE, ChIP-seq and a like.
Depends: R (>= 2.14.0), edgeR (>= 2.4.6), baySeq, NBPSeq
License: GPL-2
Copyright: Authors listed above
Packaged: 2012-05-08 14:12:28 UTC; tomoaki
Repository: CRAN
Date/Publication: 2012-05-09 04:06:52

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New package RCassandra with initial version 0.1-0
Package: RCassandra
Version: 0.1-0
Title: R/Cassandra interface
Author: Simon Urbanek
Maintainer: Simon Urbanek
Description: This packages provides a direct interface (without the use of Java) to the most basic functionality of Apache Cassanda such as login, updates and queries.
License: GPL-2
URL: http://www.rforge.net/RCassandra
Packaged: 2012-05-05 14:20:29 UTC; svnuser
Repository: CRAN
Date/Publication: 2012-05-09 04:06:50

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New package plmDE with initial version 1.0
Package: plmDE
Type: Package
Title: Additive partially linear models for differential gene expression analysis
Version: 1.0
Date: 2012-05-01
Author: Jonas Mueller
Maintainer: Jonas
Depends: R (>= 2.14.2), MASS, splines, limma, R.oo
Suggests: Biobase, edgeR, DESeq
Description: A set of tools for identifying genes whose differential expression is associated with measurements of other covariates on a continuous scale. These methods rely on generalized additive partially linear models which can be fitted efficiently using a B-spline basis approximation. Still under development: methods for interfacing with objects extending the eSet class and a function to pass linear models in edgeR and DEseq format.
License: GPL (>= 2)
Packaged: 2012-05-09 00:37:12 UTC; jonasmueller
Repository: CRAN
Date/Publication: 2012-05-09 04:06:58

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New package phia with initial version 0.0-2
Package: phia
Version: 0.0-2
Date: 2012-05-08
Title: Post-Hoc Interaction Analysis
Author: Helios De Rosario-Martinez
Maintainer: Helios De Rosario-Martinez
Description: Analysis of terms in linear and generalized linear models, on the basis of multiple comparisons of factor contrasts. Specially suited for the analysis of interaction terms.
Depends: car, graphics, stats
Imports: car
License: GPL (>= 3)
LazyData: yes
Packaged: 2012-05-08 17:56:41 UTC; helios
Repository: CRAN
Date/Publication: 2012-05-09 04:06:56

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Package FlexParamCurve updated to version 1.4 with previous version 1.3 dated 2012-02-04

Title: Tools to Fit Flexible Parametric Curves
Description: selfStart functions and model selection tools to fit parametric curves in nls, nlsList and nlme frameworks.
Author: Stephen Oswald
Maintainer: Stephen Oswald

Diff between FlexParamCurve versions 1.3 dated 2012-02-04 and 1.4 dated 2012-05-09

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Package corpcor updated to version 1.6.3 with previous version 1.6.2 dated 2012-01-22

Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements a James-Stein-type shrinkage estimator for the covariance matrix, with separate shrinkage for variances and correlations. The details of the method are explained in Sch\"afer and Strimmer (2005) and Opgen-Rhein and Strimmer (2007). The approach is both computationally as well as statistically very efficient, it is applicable to "small n, large p" data, and always returns a positive definite and well-conditioned covariance matrix. In addition to inferring the covariance matrix the package also provides shrinkage estimators for partial correlations and partial variances. The inverse of the covariance and correlation matrix can be efficiently computed, as well as any arbitrary power of the shrinkage correlation matrix. Furthermore, functions are available for fast singular value decomposition, for computing the pseudoinverse, and for checking the rank and positive definiteness of a matrix.
Author: Juliane Sch\"afer, Rainer Opgen-Rhein, Verena Zuber, Miika Ahdesm\"aki, A. Pedro Duarte Silva, and Korbinian Strimmer.
Maintainer: Korbinian Strimmer

Diff between corpcor versions 1.6.2 dated 2012-01-22 and 1.6.3 dated 2012-05-09

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Package ChoiceModelR updated to version 1.1 with previous version 1.0 dated 2012-01-04

Title: Choice Modeling in R
Description: Implements an MCMC algorithm to estimate a hierarchical multinomial logit model with a normal heterogeneity distribution. The algorithm uses a hybrid Gibbs Sampler with a random walk metropolis step for the MNL coefficients for each unit. Dependent variable may be discrete or continuous. Independent variables may be discrete or continuous with optional order constraints. Means of the distribution of heterogeneity can optionally be modeled as a linear function of unit characteristics variables.
Author: Ryan Sermas , assisted by John V. Colias
Maintainer: Ryan Sermas

Diff between ChoiceModelR versions 1.0 dated 2012-01-04 and 1.1 dated 2012-05-09

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Package caroline updated to version 0.7.2 with previous version 0.6.9 dated 2012-02-09

Title: A Collection of Database, Data Structure, Visualization, and Utility Functions for R
Description: The caroline R library contains dozens of functions useful for: database migration (dbWriteTable2), database style joins & aggregation (nerge, groupBy & bestBy), data structure conversion (nv, tab2df), legend table making (sstable & leghead), plot annotation (labsegs & mvlabs), data visualization (violins, pies & raPlot), character string manipulation (m & pad), file I/O (write.delim), batch scripting (cmdArgsToVariables) and many more. The package's greatest contributions lie in the database style merge, aggregation and interface functions as well as in it's extensive use and propagation of row, column and vector names in most functions.
Author: David M. Schruth
Maintainer: David M. Schruth

Diff between caroline versions 0.6.9 dated 2012-02-09 and 0.7.2 dated 2012-05-09

 DESCRIPTION          |    8 ++--
 MD5                  |   42 ++++++++++++------------
 R/aggregate.R        |   87 +++++++++++++++++++++++++++++++++++----------------
 R/database.R         |    1 
 R/io.R               |   62 +++++++-----------------------------
 R/plots.R            |   79 ++++++++++++++++++++++++++++++++++++++++++++++
 R/string.R           |    7 +++-
 man/addFactLevs.Rd   |    4 +-
 man/bestBy.Rd        |    2 -
 man/dbWriteTable2.Rd |    3 -
 man/delist.Rd        |    2 -
 man/groupBy.Rd       |    7 +---
 man/heatmatrix.Rd    |only
 man/hyperplot.Rd     |    2 -
 man/leghead.Rd       |    3 -
 man/nerge.Rd         |    2 -
 man/raAddArms.Rd     |    6 ---
 man/raAddAxLabs.Rd   |    6 ---
 man/raAddSigLines.Rd |    6 ---
 man/read.tab.Rd      |only
 man/regroup.Rd       |    2 -
 man/wjitter.Rd       |    2 -
 man/write.delim.Rd   |    4 --
 23 files changed, 199 insertions(+), 138 deletions(-)

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New package Animal with initial version 1.04
Package: Animal
Type: Package
Title: Analyze time-coded animal behavior data
Version: 1.04
Date: 2012-05-08
Author: Matti Pastell
Maintainer: Matti Pastell
Description: The Animal package is a collection of functions for analyzing animal (including humans) behavior data originating from a variety of sources. The package has functions to analyze time coded behaviors from CowLog (open source software for coding behaviors from digital video) data files and observation files with similar format. Other features include hourly, daily, weekly and monthly summaries of time coded data, analysis of RIC (roughage intake system, Insentec automation) data files and labeling measurement data according to behavioral observations for e.g model building purposes.
License: GPL (>= 3)
LazyLoad: yes
Repository: CRAN
URL: http://mpastell.com/CowLog/
Packaged: 2012-05-09 04:37:59 UTC; mpastell
Date/Publication: 2012-05-09 06:35:53

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