Sat, 07 Jan 2012

New package MRCE with initial version 1.0
Package: MRCE
Type: Package
Title: MRCE
Version: 1.0
Date: 2012-01-07
Author: Adam J. Rothman
Maintainer: Adam J. Rothman
Depends: R (>= 2.10.1), glasso, glmnet
Description: Multivariate regression with covariance estimation
License: GPL (>= 3)
LazyLoad: yes
Packaged: 2012-01-08 01:45:43 UTC; adam
Repository: CRAN
Date/Publication: 2012-01-08 02:06:22

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Package LambertW updated to version 0.2.9.9 with previous version 0.2.9.5 dated 2011-06-01

Title: Analyze and Gaussianize skewed, heavy-tailed data
Description: The Lambert W framework is a new generalized way to analyze skewed, heavy-tailed data. Lambert W random variables (RV) are based on an input/output framework where the input is a RV X with distribution F(x), and the output Y = func(X) has similar properties as X (but slightly skewed or heavy-tailed). Then this transformed RV Y has a Lambert W x F distribution - for details see References. This package contains functions to perform a Lambert W analysis of skewed and heavy-tailed data: data can be simulated, parameters can be estimated from real world data, quantiles can be computed, and results plotted/printed in a 'nice' way. Probably the most important function is 'Gaussianize', which works the same way as the R function 'scale' but actually makes your data Gaussian. An optional modular toolkit implementation allows users to define their own Lambert W x 'my favorite distribution' and use it for their analysis.
Author: Georg M. Goerg
Maintainer: Georg M. Goerg

Diff between LambertW versions 0.2.9.5 dated 2011-06-01 and 0.2.9.9 dated 2012-01-07

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 84 files changed, 413 insertions(+), 364 deletions(-)

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New package curvclust with initial version 0.0.1
Package: curvclust
Type: Package
Title: Curve clustering
Version: 0.0.1
Date: 2012-01-01
Author: Madison Giacofci, Sophie Lambert-Lacroix, Guillemette Marot, Franck Picard
Maintainer: Franck Picard
Depends: R (>= 2.6.0), methods, wavethresh
Description:
License: GPL (>= 2)
Packaged: 2012-01-06 14:56:55 UTC; root
Repository: CRAN
Date/Publication: 2012-01-07 20:54:40

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Package ucminf updated to version 1.1-3 with previous version 1.1-2 dated 2011-06-02

Title: General-purpose unconstrained non-linear optimization
Description: An algorithm for general-purpose unconstrained non-linear optimization. The algorithm is of quasi-Newton type with BFGS updating of the inverse Hessian and soft line search with a trust region type monitoring of the input to the line search algorithm. The interface of 'ucminf' is designed for easy interchange with 'optim'.
Author: Hans Bruun Nielsen and Stig Bousgaard Mortensen
Maintainer: Stig Bousgaard Mortensen

Diff between ucminf versions 1.1-2 dated 2011-06-02 and 1.1-3 dated 2012-01-07

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 6 files changed, 11 insertions(+), 12 deletions(-)

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Package smoothSurv updated to version 1.0 with previous version 0.7 dated 2010-05-30

Title: Survival Regression with Smoothed Error Distribution
Description: This package contains primarily a function to fit a regression model with possibly right, left or interval censored observations and with the error distrbution expressed as a mixture of G-splines. Core part of the computation is done in compiled C++ written using the Scythe Statistical Libary Version 0.3.
Author: Arnošt Komárek
Maintainer: Arnošt Komárek

Diff between smoothSurv versions 0.7 dated 2010-05-30 and 1.0 dated 2012-01-07

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 37 files changed, 73 insertions(+), 61 deletions(-)

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Package rgeos updated to version 0.1-17 with previous version 0.1-16 dated 2012-01-02

Title: Interface to Geometry Engine - Open Source (GEOS)
Description: Interface to Geometry Engine - Open Source (GEOS) using the C API for topology operations on geometries.
Author: Roger Bivand and Colin Rundel
Maintainer: Roger Bivand

Diff between rgeos versions 0.1-16 dated 2012-01-02 and 0.1-17 dated 2012-01-07

 ChangeLog            |   20 ++++++++++++++++++++
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 11 files changed, 83 insertions(+), 51 deletions(-)

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Package mvpart updated to version 1.5-0 with previous version 1.4-0 dated 2011-03-11

Title: Multivariate partitioning
Description: Multivariate regression trees
Author: rpart by Terry M Therneau and Beth Atkinson . R port of rpart by Brian Ripley . Some routines from vegan -- Jari Oksanen Extensions and adaptations of rpart to mvpart by Glenn De'ath .
Maintainer: Glenn De'ath

Diff between mvpart versions 1.4-0 dated 2011-03-11 and 1.5-0 dated 2012-01-07

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 19 files changed, 157 insertions(+), 164 deletions(-)

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Package monomvn updated to version 1.8-9 with previous version 1.8-8 dated 2011-12-19

Title: Estimation for multivariate normal and Student-t data with monotone missingness
Description: Estimation of multivariate normal and student-t data of arbitrary dimension where the pattern of missing data is monotone. Through the use of parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.), where standard regressions fail, the package can handle a nearly arbitrary amount of missing data. The current version supports maximum likelihood inference and a full Bayesian approach employing scale-mixtures for the lasso (double-exponential) and Normal-Gamma priors, and Student-t errors. Monotone data augmentation extends this Bayesian approach to arbitrary missingness patterns. A fully functional standalone interface to the Bayesian lasso (from Park & Casella), Normal-Gamma (from Griffin & Brown), and ridge regression with model selection via Reversible Jump, and student-t errors (from Geweke) is also provided
Author: Robert B. Gramacy
Maintainer: Robert B. Gramacy

Diff between monomvn versions 1.8-8 dated 2011-12-19 and 1.8-9 dated 2012-01-07

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Package mclust updated to version 3.4.11 with previous version 3.4.10 dated 2011-05-30

Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling including Bayesian regularization
Author: Chris Fraley and Adrian Raftery
Maintainer: Chris Fraley

Diff between mclust versions 3.4.10 dated 2011-05-30 and 3.4.11 dated 2012-01-07

 CHANGELOG     |    3 ++-
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New package events with initial version 0.5
Package: events
Type: Package
Title: Store and manipulate event data
Version: 0.5
Date: 2011-12-03
Author: Will Lowe
Maintainer: Will Lowe
Depends: R (>= 2.10)
Description: Stores, manipulates, aggregates and otherwise messes with event data from KEDS/TABARI or any other extraction tool with similar output
License: GPL
Collate: 'events.R'
Packaged: 2012-01-07 17:19:41 UTC; will
Repository: CRAN
Date/Publication: 2012-01-07 17:47:40

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Package dynaTree updated to version 1.2-5 with previous version 1.2-4 dated 2011-12-19

Title: Dynamic trees for learning and design
Description: Inference by sequential Monte Carlo for dynamic tree regression and classification models with hooks provided for sequential design and optimization, fully online learning with drift, variable selection, and sensitivity analysis of inputs. Illustrative examples from the original dynamic trees paper are facilitated by demos in the package; see demo(package="dynaTree")
Author: Robert B. Gramacy and Matt A. Taddy
Maintainer: Robert B. Gramacy

Diff between dynaTree versions 1.2-4 dated 2011-12-19 and 1.2-5 dated 2012-01-07

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 8 files changed, 44 insertions(+), 19 deletions(-)

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Package ash updated to version 1.0-13 with previous version 1.0-12 dated 2009-09-21

Title: David Scott's ASH routines
Description: David Scotts ASH routines
Author: S original by David W. Scott R port by Albrecht Gebhardt adopted to recent S-PLUS by Stephen Kaluzny
Maintainer: Albrecht Gebhardt

Diff between ash versions 1.0-12 dated 2009-09-21 and 1.0-13 dated 2012-01-07

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Package ineq updated to version 0.2-10 with previous version 0.2-9 dated 2009-12-16

Title: Measuring Inequality, Concentration, and Poverty
Description: Inequality, concentration, and poverty measures. Lorenz curves (empirical and theoretical).
Author: Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis

Diff between ineq versions 0.2-9 dated 2009-12-16 and 0.2-10 dated 2012-01-07

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New package iGasso with initial version 1.0
Package: iGasso
Type: Package
Title: Genetic association tests
Version: 1.0
Date: 2012-01-06
Author: Dr. Kai Wang
Maintainer: Kai Wang
Description: A collection of statistical tests for genetic association studies
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2012-01-07 07:15:14 UTC; kaiwang
Repository: CRAN
Date/Publication: 2012-01-07 11:07:37

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Package galts updated to version 1.2 with previous version 1.1 dated 2011-02-05

Title: Genetic algorithms and C-steps based LTS (Least Trimmed Squares) estimation
Description: This package includes the ga.lts function that estimates LTS (Least Trimmed Squares) parameters using genetic algorithms and C-steps. ga.lts() constructs a genetic algorithm to form a basic subset and iterates C-steps as defined in Rousseeuw and van-Driessen (2006) to calculate the cost value of the LTS criterion. OLS(Ordinary Least Squares) regression is known to be sensitive to outliers. A single outlying observation can change the values of estimated parameters. LTS is a resistant estimator even the number of outliers is up to half of the data. This package is for estimating the LTS parameters with lower bias and variance in a reasonable time.
Author: Mehmet Hakan Satman
Maintainer: Mehmet Hakan Satman

Diff between galts versions 1.1 dated 2011-02-05 and 1.2 dated 2012-01-07

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Package cplm updated to version 0.5-1 with previous version 0.4-1 dated 2011-11-08

Title: Tweedie compound Poisson linear models
Description: Fit Tweedie compound Poisson linear models and their Bayesian extensions.
Author: Wayne Zhang
Maintainer: Wayne Zhang

Diff between cplm versions 0.4-1 dated 2011-11-08 and 0.5-1 dated 2012-01-07

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 32 files changed, 2384 insertions(+), 1629 deletions(-)

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Package mnormt updated to version 1.4-5 with previous version 1.4-3 dated 2011-05-04

Title: The multivariate normal and t distributions
Description: This package provides functions for computing the density and the distribution function of multivariate normal and multivariate "t" variates, and for generating random vectors sampled from these distributions. Probabilities are computed via a non-Monte Carlo method; different routines are used for the case d=1, d=2, d>2, if d denotes the number of dimensions.
Author: Fortran code by Alan Genz, R code by Adelchi Azzalini
Maintainer: Adelchi Azzalini

Diff between mnormt versions 1.4-3 dated 2011-05-04 and 1.4-5 dated 2012-01-07

 DESCRIPTION   |   21 ++++++++++-----------
 MD5           |only
 NAMESPACE     |only
 R/mnormt.R    |    2 +-
 history.txt   |    1 +
 src/sadmvnt.f |    1 +
 6 files changed, 13 insertions(+), 12 deletions(-)

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Package latticeDensity updated to version 1.0.7 with previous version 1.0.6 dated 2011-06-25

Title: Density estimation and nonparametric regression on irregular regions
Description: This package contains functions that compute the lattice-based density estimator of Barry and McIntyre, which accounts for point processes in two-dimensional regions with irregular boundaries and holes. The package also implements two-dimensional non-parametric regression for similar regions.
Author: Ronald Barry
Maintainer: Ronald Barry

Diff between latticeDensity versions 1.0.6 dated 2011-06-25 and 1.0.7 dated 2012-01-07

 DESCRIPTION     |   16 ++++++++--------
 MD5             |only
 NEWS            |    6 ++++++
 R/nodeFilling.R |    1 +
 4 files changed, 15 insertions(+), 8 deletions(-)

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Package gridExtra updated to version 0.9 with previous version 0.8.5 dated 2011-10-27

Title: functions in Grid graphics
Description: misc. high-level Grid functions
Author: Baptiste Auguie
Maintainer: baptiste

Diff between gridExtra versions 0.8.5 dated 2011-10-27 and 0.9 dated 2012-01-07

 gridExtra-0.8.5/gridExtra/inst/tableGrob2.r      |only
 gridExtra-0.9/gridExtra/DESCRIPTION              |   16 +-
 gridExtra-0.9/gridExtra/MD5                      |   89 ++++++-------
 gridExtra-0.9/gridExtra/NAMESPACE                |   59 ++++++++
 gridExtra-0.9/gridExtra/NEWS                     |   13 +
 gridExtra-0.9/gridExtra/R/arcText.r              |    9 -
 gridExtra-0.9/gridExtra/R/arrange.r              |  155 +++++++++++++++--------
 gridExtra-0.9/gridExtra/R/barbedGrob.r           |   13 +
 gridExtra-0.9/gridExtra/R/borderGrob.r           |    3 
 gridExtra-0.9/gridExtra/R/colorstripGrob.r       |    9 -
 gridExtra-0.9/gridExtra/R/ebimage.r              |    4 
 gridExtra-0.9/gridExtra/R/ellipseGrob.r          |    3 
 gridExtra-0.9/gridExtra/R/gridExtra-package.r    |   39 +----
 gridExtra-0.9/gridExtra/R/grob-utils.r           |   19 ++
 gridExtra-0.9/gridExtra/R/ngonGrob.r             |    4 
 gridExtra-0.9/gridExtra/R/patternGrob.r          |   12 +
 gridExtra-0.9/gridExtra/R/pixmap.r               |   10 -
 gridExtra-0.9/gridExtra/R/polygon.regular.r      |   29 +---
 gridExtra-0.9/gridExtra/R/rpattern.r             |   14 +-
 gridExtra-0.9/gridExtra/R/stextGrob.r            |    4 
 gridExtra-0.9/gridExtra/R/tableGrob.r            |   18 ++
 gridExtra-0.9/gridExtra/TODO                     |    6 
 gridExtra-0.9/gridExtra/inst/test/tableGrob2.r   |only
 gridExtra-0.9/gridExtra/man/arcTextGrob.Rd       |   47 +++++-
 gridExtra-0.9/gridExtra/man/arrangeGrob.Rd       |   78 +++++------
 gridExtra-0.9/gridExtra/man/barbedGrob.Rd        |   73 +++++++---
 gridExtra-0.9/gridExtra/man/borderGrob.Rd        |   53 +++++--
 gridExtra-0.9/gridExtra/man/colorstripGrob.Rd    |   48 ++++---
 gridExtra-0.9/gridExtra/man/ebimageGrob.Rd       |   56 ++++++--
 gridExtra-0.9/gridExtra/man/ellipseGrob.Rd       |   46 +++++-
 gridExtra-0.9/gridExtra/man/expand.arguments.Rd  |   26 ++-
 gridExtra-0.9/gridExtra/man/gridExtra-package.Rd |   25 +--
 gridExtra-0.9/gridExtra/man/interleaven.Rd       |   34 +++--
 gridExtra-0.9/gridExtra/man/marrangeGrob.Rd      |only
 gridExtra-0.9/gridExtra/man/ngonGrob.Rd          |   49 +++++--
 gridExtra-0.9/gridExtra/man/patternGrob.Rd       |   70 +++++++---
 gridExtra-0.9/gridExtra/man/pixmapGrob.Rd        |   50 +++++--
 gridExtra-0.9/gridExtra/man/polygon.regular.Rd   |   31 +++-
 gridExtra-0.9/gridExtra/man/polygon.star.Rd      |   23 ++-
 gridExtra-0.9/gridExtra/man/polygon1.Rd          |   25 ++-
 gridExtra-0.9/gridExtra/man/read.tiff.Rd         |   19 +-
 gridExtra-0.9/gridExtra/man/rowMax.units.Rd      |   23 ++-
 gridExtra-0.9/gridExtra/man/rpatternGrob.Rd      |   62 ++++++---
 gridExtra-0.9/gridExtra/man/stextGrob.Rd         |   22 ++-
 gridExtra-0.9/gridExtra/man/tableGrob.Rd         |  147 +++++++++++++++------
 gridExtra-0.9/gridExtra/man/theme.default.Rd     |   25 ++-
 gridExtra-0.9/gridExtra/man/virtualGrob.Rd       |   35 ++++-
 47 files changed, 1081 insertions(+), 514 deletions(-)

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