Wed, 07 Dec 2011

Package spt updated to version 1.11-12-7 with previous version 1.11-11-27 dated 2011-11-28

Title: Sierpinski Pedal Triangle
Description: This package collects algorithms related to Sierpinski pedal triangle (SPT).
Author: Bin Wang .
Maintainer: Bin Wang

Diff between spt versions 1.11-11-27 dated 2011-11-28 and 1.11-12-7 dated 2011-12-07

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Package RcppArmadillo updated to version 0.2.33 with previous version 0.2.32 dated 2011-12-05

Title: Rcpp integration for Armadillo templated linear algebra library
Description: R and Armadillo integration using Rcpp Armadillo is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. A delayed evaluation approach is employed (during compile time) to combine several operations into one, and to reduce (or eliminate) the need for temporaries. This is accomplished through recursive templates and template meta-programming. This library is useful if C++ has been decided as the language of choice (due to speed and/or integration capabilities), rather than another language. The RcppArmadillo package includes the header files from the templated Armadillo library (currently version 2.4.1). Thus users do not need to install Armadillo itself in order to use RcppArmadillo. This Armadillo integration provides a nice illustration of the capabilities of the Rcpp package for seamless R and C++ integration. Armadillo is licensed under the GNU LGPL version 3 or later, while RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is licenses under the GNU GPL version 2 or later, as is the rest of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Romain Francois, Dirk Eddelbuettel and Doug Bates

Diff between RcppArmadillo versions 0.2.32 dated 2011-12-05 and 0.2.33 dated 2011-12-07

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Package devtools updated to version 0.5.1 with previous version 0.5 dated 2011-12-04

Title: Tools to make developing R code easier
Description: Collection of package development tools
Author: Hadley Wickham
Maintainer: Hadley Wickham

Diff between devtools versions 0.5 dated 2011-12-04 and 0.5.1 dated 2011-12-07

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New package doParallel with initial version 1.0.0
Package: doParallel
Type: Package
Title: Foreach parallel adaptor for the multicore package
Version: 1.0.0
Author: Revolution Analytics
Maintainer: Revolution Analytics
Description: Provides a parallel backend for the %dopar% function using the parallel package.
Depends: R (>= 2.14.0), foreach(>= 1.2.0), iterators(>= 1.0.0), utils, parallel
Enhances: compiler, RUnit
License: GPL-2
Repository: CRAN
Repository/R-Forge/Project: doparallel
Repository/R-Forge/Revision: 3
Date/Publication: 2011-12-07 17:07:27
Packaged: 2011-12-06 22:12:07 UTC; rforge

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Package cvTools updated to version 0.1.1 with previous version 0.1 dated 2011-11-07

Title: Cross-validation tools for regression models
Description: Tools that allow developers to write functions for cross-validation with minimal programming effort and assist users with model selection.
Author: Andreas Alfons
Maintainer: Andreas Alfons

Diff between cvTools versions 0.1 dated 2011-11-07 and 0.1.1 dated 2011-12-07

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Package crs updated to version 0.15-12 with previous version 0.15-11 dated 2011-12-03

Title: Categorical Regression Splines
Description: This package provides for estimating regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
Author: Jeffrey S. Racine and Zhenghua Nie
Maintainer: Jeffrey S. Racine

Diff between crs versions 0.15-11 dated 2011-12-03 and 0.15-12 dated 2011-12-07

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New package VariABEL with initial version 0.9-0
Package: VariABEL
Type: Package
Title: Testing of genotypic variance heterogeneity to detect potentially interacting SNP.
Version: 0.9-0
Date: 2011-12-02
Author: Maksim Struchalin
Maintainer: Maksim Struchalin
Depends: R (>= 2.13.0)
Suggests: GenABEL, DatABEL
Description: Presence of interaction between a SNP and another SNP (or another factor) can result in heterogeneity of variance between the genotypes of an interacting SNP. Detecting such heterogeneity gives prior knowledge for constructing a genetic model underlying complex trait.
License: GPL (>= 2)
Packaged: 2011-12-07 13:50:10 UTC; maksim
Repository: CRAN
Date/Publication: 2011-12-07 14:14:23

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Package foreign updated to version 0.8-48 with previous version 0.8-47 dated 2011-11-09

Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical packages such as Minitab, S, SAS, SPSS, Stata, Systat, ..., and for reading and writing dBase files.
Author: R-core members, Saikat DebRoy, Roger Bivand and others: see COPYRIGHTS file in the sources.
Maintainer: R-core

Diff between foreign versions 0.8-47 dated 2011-11-09 and 0.8-48 dated 2011-12-07

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Package dti updated to version 1.0-0.1 with previous version 1.0-0 dated 2011-12-01

Title: Analysis of diffusion weighted imaging (DWI) data
Description: Diffusion Weighted Imaging (DWI) is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data. The functionality includes diffusion tensor imaging (DTI), structural adaptive smoothing in in case of (DTI) (K. Tabelow, J. Polzehl, V. Spokoiny, and H.U. Voss, Diffusion Tensor Imaging: Structural Adaptive Smoothing, Neuroimage 39(4), 1763-1773 (2008)), modeling for high angular resolution diffusion weighted imaging (HARDI) using Q-ball-reconstruction and tensor mixture models and a stremaline fiber tracking for tensor and tensor mixture models. The package provides functionality to manipulate and visualize results in 2D and 3D.
Author: Karsten Tabelow Joerg Polzehl
Maintainer: Karsten Tabelow

Diff between dti versions 1.0-0 dated 2011-12-01 and 1.0-0.1 dated 2011-12-07

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Package adimpro updated to version 0.7.6 with previous version 0.7.5 dated 2010-09-03

Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach by Polzehl and Spokoiny (2006) for smoothing digital images.
Author: Karsten Tabelow , Joerg Polzehl
Maintainer: Karsten Tabelow

Diff between adimpro versions 0.7.5 dated 2010-09-03 and 0.7.6 dated 2011-12-07

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Package WGCNA updated to version 1.17 with previous version 1.15 dated 2011-11-12

Title: Weighted Correlation Network Analysis
Description: Functions necessary to perform Weighted Correlation Network Analysis
Author: Peter Langfelder and Steve Horvath with contributions by Chaochao Cai, Jun Dong, Jeremy Miller, Lin Song, Andy Yip, and Bin Zhang
Maintainer: Peter Langfelder

Diff between WGCNA versions 1.15 dated 2011-11-12 and 1.17 dated 2011-12-07

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Package tolerance updated to version 0.4.0 with previous version 0.3.0 dated 2011-04-03

Title: Functions for calculating tolerance intervals
Description: Tolerance limits provide the limits between which we can expect to find a specified proportion of a population with a given level of confidence. This package provides functions for estimating tolerance limits for various distributions. Plotting is also available for tolerance limits of continuous random variables.
Author: Derek S. Young
Maintainer: Derek S. Young

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Package tables updated to version 0.5 with previous version 0.3 dated 2011-11-29

Title: Formula-driven table generation
Description: Computes and displays complex tables of summary statistics
Author: Duncan Murdoch
Maintainer: Duncan Murdoch

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Package sparcl updated to version 1.0.2 with previous version 1.0.1 dated 2010-05-16

Title: Perform sparse hierarchical clustering and sparse k-means clustering
Description: Implements the sparse clustering methods of Witten and Tibshirani (2010): "A framework for feature selection in clustering"; published in Journal of the American Statistical Association 105(490): 713-726.
Author: Daniela M. Witten and Robert Tibshirani
Maintainer:

Diff between sparcl versions 1.0.1 dated 2010-05-16 and 1.0.2 dated 2011-12-07

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Package RSQLite updated to version 0.11.1 with previous version 0.11.0 dated 2011-12-01

Title: SQLite interface for R
Description: Database Interface R driver for SQLite. This package embeds the SQLite database engine in R and provides an interface compliant with the DBI package. The source for the SQLite engine (version 3.7.9) is included.
Author: David A. James
Maintainer: Seth Falcon

Diff between RSQLite versions 0.11.0 dated 2011-12-01 and 0.11.1 dated 2011-12-07

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Package rockchalk updated to version 1.3.2 with previous version 1.3.1 dated 2011-12-02

Title: Regression Estimation and Presentation
Description: A collection of functions for ease of presentation and interpretation of regression analysis. See the outreg function for a way to generate LaTeX tables of regression models and mcGraph for creating 3-dimensional regression plots. The package title "rockchalk" refers to the expression, "Rock Chalk Jayhawk, Go K.U.".
Author: Paul E. Johnson
Maintainer: Paul E. Johnson

Diff between rockchalk versions 1.3.1 dated 2011-12-02 and 1.3.2 dated 2011-12-07

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Package Rclusterpp updated to version 0.2.0 with previous version 0.1.3 dated 2011-11-25

Title: Linkable C++ clustering
Description: Provide flexible native clustering routines that can be linked against in downstream packages.
Author: Michael Linderman
Maintainer: Michael Linderman

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Package raster updated to version 1.9-54 with previous version 1.9-52 dated 2011-12-03

Title: Geographic analysis and modeling with raster data
Description: Reading, writing, manipulating, analyzing and modeling of gridded spatial data. The package implements basic and high-level functions, as well as map algebra. Processing of very large files is supported.
Author: Robert J. Hijmans & Jacob van Etten
Maintainer: Robert J. Hijmans

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Package MNP updated to version 2.6-3 with previous version 2.6-2 dated 2010-10-28

Title: R Package for Fitting the Multinomial Probit Model
Description: MNP is a publicly available R package that fits the Bayesian multinomial probit model via Markov chain Monte Carlo. The multinomial probit model is often used to analyze the discrete choices made by individuals recorded in survey data. Examples where the multinomial probit model may be useful include the analysis of product choice by consumers in market research and the analysis of candidate or party choice by voters in electoral studies. The MNP software can also fit the model with different choice sets for each individual, and complete or partial individual choice orderings of the available alternatives from the choice set. The estimation is based on the efficient marginal data augmentation algorithm that is developed by Imai and van Dyk (2005). ``A Bayesian Analysis of the Multinomial Probit Model Using the Data Augmentation,'' Journal of Econometrics, Vol. 124, No. 2 (February), pp. 311-334. Detailed examples are given in Imai and van Dyk (2005). ``MNP: R Package for Fitting the Multinomial Probit Model.'' Journal of Statistical Software, Vol. 14, No. 3 (May), pp. 1-32.
Author: Kosuke Imai , David A. van Dyk .
Maintainer: Kosuke Imai

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Package lfe updated to version 1.4-731 with previous version 1.4-729 dated 2011-11-29

Title: Linear Group Fixed Effects
Description: Estimate linear models with multiple group fixed effects
Author: Simen Gaure, Ragnar Frisch Centre for Economic Research
Maintainer: Simen Gaure

Diff between lfe versions 1.4-729 dated 2011-11-29 and 1.4-731 dated 2011-12-07

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Package CommonTrend updated to version 0.6-1 with previous version 0.5-1 dated 2011-11-21

Title: Extract and plot common trends from a cointegration system. Calculate P-value for Johansen Statistics.
Description: Directly extract and plot common trends from cointegration systems using different approaches, currenctly including Kasa (1992) and Gonzalo and Granger (1995). The approach proposed by Gonzalo and Granger, also known as Permanent-Transitory Decomposition, is widely used in Macroeconomics and Market Microstructure literature. The Kasa's approach has a nice property that it only uses the super consistent estimater: the cointegration vector 'beta'. In addition, this package can also calculate P-value for Johansen Statistics according to the approximation method proposed by Doornik(1998).
Author: Fan Yang
Maintainer: Fan Yang

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Package caret updated to version 5.09-006 with previous version 5.08-011 dated 2011-11-25

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 and Allan Engelhardt
Maintainer: Max Kuhn

Diff between caret versions 5.08-011 dated 2011-11-25 and 5.09-006 dated 2011-12-07

 DESCRIPTION                 |    8 ++++----
 MD5                         |   28 ++++++++++++++--------------
 R/predictionFunction.R      |   17 +++++------------
 R/probFunction.R            |   30 +++++++++++++-----------------
 R/train.default.R           |    4 ++++
 inst/NEWS                   |   20 +++++++++++++++++++-
 inst/doc/allPred.pdf        |binary
 inst/doc/caretMisc.pdf      |binary
 inst/doc/caretSelection.pdf |binary
 inst/doc/caretTrain.pdf     |binary
 inst/doc/caretVarImp.pdf    |binary
 inst/doc/compact.Rout       |    2 +-
 inst/doc/filteredPred.pdf   |binary
 inst/doc/min.pdf            |binary
 inst/doc/speedup.pdf        |binary
 15 files changed, 60 insertions(+), 49 deletions(-)

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Package caroline updated to version 0.6.7 with previous version 0.6.6 dated 2011-11-29

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 0.6.6 dated 2011-11-29 and 0.6.7 dated 2011-12-07

 DESCRIPTION      |    6 +--
 MD5              |    8 ++--
 R/aggregate.R    |    4 +-
 R/plots.R        |   91 ++++++++++++++++++++++++++++++++++++++++---------------
 man/hyperplot.Rd |   76 +++++++++++++++++++++++++++++++++++----------
 5 files changed, 135 insertions(+), 50 deletions(-)

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New package boussinesq with initial version 1.0
Package: boussinesq
Maintainer: Emanuele Cordano
License: GPL (>= 2)
Title: Analytic Solutions for (ground-water) Boussinesq Equation
Type: Package
Author: Emanuele Cordano
Description: This package is a collection of R functions implemented from published and available analytic solutions for the One-Dimensional Boussinesq Equation (ground-water). In particular, the function "beq.lin" is the analytic solution of the linarized form of Boussinesq Equation between two different head-based boundary (Dirichlet) conditions; "beq.song" is the non-linear power-series analytic solution of the motion of a wetting front over a dry bedrock (Song at al, 2007, see complete reference on function documentation). Bugs/comments/questions/collaboration of any kind are warmly welcomed.
Version: 1.0
Repository: CRAN
Date: 2011-12-06
Depends: R (>= 2.10)
Collate: 'beq.lin.dimensionless.R' 'beq.lin.R' 'beq.song.dimensionless.R' 'beq.song.R' 'boussinesq-package.R' 'coefficient.song.solution.R'
Packaged: 2011-12-06 17:04:28 UTC; ecor
Date/Publication: 2011-12-07 10:13:54

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Package bgmm updated to version 1.4 with previous version 1.3 dated 2011-08-25

Title: Gaussian Mixture Modeling algorithms. Including the belief-based mixture modeling.
Description:
Author: Przemyslaw Biecek \& Ewa Szczurek
Maintainer: Przemyslaw Biecek

Diff between bgmm versions 1.3 dated 2011-08-25 and 1.4 dated 2011-12-07

 DESCRIPTION         |   10 +++++-----
 MD5                 |   20 ++++++++++----------
 R/bgmm.e.step.r     |    2 +-
 R/bgmm.m.step.r     |   12 ++++++------
 R/bgmm.r            |   30 ++++++++++++++++++------------
 R/plot.semiList.r   |    6 +++---
 R/soft.e.step.r     |   10 +++++-----
 R/soft.r            |    4 ++--
 man/chooseModels.Rd |    3 ++-
 man/crossval.Rd     |    4 ++--
 man/plotGIC.Rd      |    9 ++++++---
 11 files changed, 60 insertions(+), 50 deletions(-)

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