Tue, 15 May 2012

Package robCompositions updated to version 1.6.0 with previous version 1.5.0 dated 2011-05-06

Title: Robust Estimation for Compositional Data.
Description: The package includes methods for imputation of compositional data including robust methods, methods to impute rounded zeros, (robust) outlier detection for compositional data, (robust) principal component analysis for compositional data, (robust) factor analysis for compositional data, (robust) discriminant analysis for compositional data (Fisher rule), robust regression with compositional predictors and (robust) Anderson-Darling normality tests for compositional data as well as popular log-ratio transformations (alr, clr, ilr, and their inverse transformations). In addition, visualisation and diagnostic tools are implemented as well as high and low-level plot functions for the ternary diagram.
Author: Matthias Templ, Karel Hron, Peter Filzmoser
Maintainer: Matthias Templ

Diff between robCompositions versions 1.5.0 dated 2011-05-06 and 1.6.0 dated 2012-05-15

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New package MetaDE with initial version 1.0
Package: MetaDE
Type: Package
Title: Meta analysis of multiple microarray data
Version: 1.0
Date: 2012-03-27
Author: Jia Li and Xingbin Wang
Maintainer: Jia Li and Xingbin Wang
Depends: survival, impute,Biobase,combinat,tools
Description: A collection of functions for conducting genomic meta-analysis in R.
License: GPL-2
LazyLoad: yes
Packaged: 2012-05-12 13:22:33 UTC; xingbin
Repository: CRAN
Date/Publication: 2012-05-15 15:35:38

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Package coxme updated to version 2.2-3 with previous version 2.2-2 dated 2012-04-27

Title: Mixed Effects Cox Models.
Description: Cox proportional hazards models containing Gaussian random effects, also known as frailty models.
Author: Terry Therneau
Maintainer: Terry Therneau

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Package bayesclust updated to version 3.1 with previous version 3.0 dated 2010-03-13

Title: Tests/Searches for significant clusters in genetic data.
Description: Bayes Clustering Package
Author: Gopal, V. and Fuentes, C. and Casella, G.
Maintainer: Gopal, V.

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Package timsac updated to version 1.2.7 with previous version 1.2.6 dated 2012-03-05

Title: TIMe Series Analysis and Control package
Description: Functions for statistical analysis, prediction and control of time series.
Author: The Institute of Statistical Mathematics
Maintainer: The Institute of Statistical Mathematics

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Package extracat updated to version 1.5-0 with previous version 1.4-0 dated 2011-08-30

Title: Graphic Extensions for Categorical Data
Description: graphic extensions for categorical data
Author: Alexander Pilhoefer
Maintainer: Alexander Pilhoefer

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Package secr updated to version 2.3.2 with previous version 2.3.1 dated 2011-12-20

Title: Spatially explicit capture-recapture
Description: Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.
Author: Murray Efford
Maintainer: Murray Efford

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Package rredis updated to version 1.6.6 with previous version 1.6.3 dated 2011-10-23

Title: Redis client for R
Description: An R client for the Redis persistent key-value database available from http://redis.io.
Author: B. W. Lewis
Maintainer: B. W. Lewis

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New package ri with initial version 0.9
Package: ri
Type: Package
Title: ri: R package for performing randomization-based inference for experiments
Version: 0.9
Date: 2012-05-10
Author: Peter M. Aronow and Cyrus Samii
Maintainer: Cyrus Samii
Description: This package provides a set of tools for conducting exact or approximate randomization-based inference for experiments of arbitrary design. The primary functionality of the package is in the generation, manipulation and use of permutation matrices implied by given experimental designs. Among other features, the package facilitates estimation of average treatment effects, constant effects variance estimation, randomization inference for significance testing against sharp null hypotheses and visualization of data and results.
License: GPL (>= 2)
Packaged: 2012-05-14 16:15:27 UTC; peteraronow
Repository: CRAN
Date/Publication: 2012-05-15 06:44:09

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Package rfishbase updated to version 0.0-9 with previous version 0.0-8 dated 2012-04-03

Title: R Interface to FishBASE
Description: A programmatic interface to fishbase.org.
Author: Carl Boettiger [aut, cre], Duncan Temple Lang [aut], Peter C. Wainwright [aut]
Maintainer: Carl Boettiger,

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 26 files changed, 287 insertions(+), 159 deletions(-)

More information about rfishbase at CRAN
Permanent link

Package RcppSMC updated to version 0.1.1 with previous version 0.1.0 dated 2012-03-22

Title: Rcpp bindings for Sequential Monte Carlo
Description: This package provides R with access to the Sequential Monte Carlo Template Classes by Johansen (Journal of Statistical Software, 2009, v30, i6). At present, two additional examples have been added, and the first example from the JSS paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel and Adam M. Johansen
Maintainer: Dirk Eddelbuettel

Diff between RcppSMC versions 0.1.0 dated 2012-03-22 and 0.1.1 dated 2012-05-15

 ChangeLog              |   10 +++++++++-
 DESCRIPTION            |    8 ++++----
 MD5                    |    6 +++---
 inst/include/sampler.h |    2 +-
 4 files changed, 17 insertions(+), 9 deletions(-)

More information about RcppSMC at CRAN
Permanent link

Package pomp updated to version 0.42-4 with previous version 0.42-1 dated 2012-05-03

Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes
Author: Aaron A. King, Edward L. Ionides, Carles Breto, Steve Ellner, Bruce Kendall, Helen Wearing, Matthew J. Ferrari, Michael Lavine, Daniel C. Reuman
Maintainer: Aaron A. King

Diff between pomp versions 0.42-1 dated 2012-05-03 and 0.42-4 dated 2012-05-15

 DESCRIPTION                          |   10 -
 MD5                                  |   56 +++----
 R/builder.R                          |    8 -
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 R/dprocess-pomp.R                    |   12 -
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 R/rprocess-pomp.R                    |   13 -
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 R/trajectory-pomp.R                  |   24 +--
 data/bbs.rda                         |binary
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 demo/sir.R                           |  267 ++++++++++++++++++++---------------
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 inst/NEWS                            |    8 +
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 src/R_init_pomp.c                    |    2 
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 29 files changed, 436 insertions(+), 233 deletions(-)

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Package planar updated to version 1.2.1 with previous version 1.2 dated 2012-03-05

Title: Multilayer optics
Description: Solves the electromagnetic problem of reflection and transmission at a multilayer planar interface. Also computes the decay rates for a dipolar emitter near a multilayer structure.
Author: baptiste Auguie
Maintainer: baptiste Auguie

Diff between planar versions 1.2 dated 2012-03-05 and 1.2.1 dated 2012-05-15

 DESCRIPTION                 |    6 ++---
 MD5                         |    8 +++----
 NEWS                        |    4 +++
 R/planar-package.r          |    6 +++--
 demo/fluorescence_pattern.r |   48 +++++++++++++++++++++-----------------------
 5 files changed, 38 insertions(+), 34 deletions(-)

More information about planar at CRAN
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Package phenology updated to version 3.31 with previous version 3.29 dated 2012-04-11

Title: Tools to manage a parametric function that describes phenology
Description: Functions to fit and test the phenology of species based on counts.
Author: Marc Girondot
Maintainer: Marc Girondot

Diff between phenology versions 3.29 dated 2012-04-11 and 3.31 dated 2012-05-15

 DESCRIPTION                  |   19 ++---
 MD5                          |   72 +++++++++++--------
 NAMESPACE                    |    7 +
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 R/Likelihood_phenology.R     |   18 ++--
 R/Lnegbin.R                  |   31 ++++----
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 R/daily_count.R              |   16 +++-
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More information about phenology at CRAN
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Package maps updated to version 2.2-6 with previous version 2.2-5 dated 2012-01-15

Title: Draw Geographical Maps
Description: Display of maps. Projection code and larger maps are in separate packages (mapproj and mapdata).
Author: Original S code by Richard A. Becker and Allan R. Wilks. R version by Ray Brownrigg . Enhancements by Thomas P Minka .
Maintainer: Ray Brownrigg

Diff between maps versions 2.2-5 dated 2012-01-15 and 2.2-6 dated 2012-05-15

 DESCRIPTION           |    8 
 MD5                   |   12 
 data/world.cities.rda |binary
 man/map.cities.Rd     |   11 
 src/county.gon        |    2 
 src/county.gonstats   |    2 
 src/county.name       | 1379 ++++++++++++++++++++++++--------------------------
 7 files changed, 705 insertions(+), 709 deletions(-)

More information about maps at CRAN
Permanent link

New package lava.tobit with initial version 0.4-6
Package: lava.tobit
Type: Package
Title: LVM with censored and binary outcomes
Version: 0.4-6
Date: 2012-04-24
Author: Klaus K. Holst
Maintainer: Klaus K. Holst
Description: lava plugin allowing combinations of left and right censored and binary outcomes
Keywords: twin model, structural equation model
Depends: R (>= 2.8.0), lava (>= 0.9-15), mvtnorm, survival
License: GPL-3
LazyLoad: yes
Packaged: 2012-05-13 13:52:05 UTC; klaus
Repository: CRAN
Date/Publication: 2012-05-15 06:38:12

More information about lava.tobit at CRAN
Permanent link

Package fda updated to version 2.2.8 with previous version 2.2.7 dated 2011-08-30

Title: Functional Data Analysis
Description: These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. New York: Springer. They were ported from earlier versions in Matlab and S-PLUS. An introduction appears in Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009) Functional Data Analysis with R and Matlab (Springer). The package includes data sets and script files working many examples including all but one of the 76 figures in this latter book. The principal changes to version 2.2.8 are: 1. The use of sparse matrix representation for spline basis functions and in function smooth.basis. 2. The correction of a bug in function pca.fd. Analyses using the earlier version should be redone.
Author: J. O. Ramsay , Hadley Wickham , Spencer Graves , Giles Hooker
Maintainer: J. O. Ramsay

Diff between fda versions 2.2.7 dated 2011-08-30 and 2.2.8 dated 2012-05-15

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 fda-2.2.8/fda/R/AmpPhaseDecomp.R                                   |   13 
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 fda-2.2.8/fda/R/Data2fd.R                                          |    8 
 fda-2.2.8/fda/R/TaylorSpline.R                                     |   35 
 fda-2.2.8/fda/R/basisfd.R                                          |    9 
 fda-2.2.8/fda/R/bsplineS.R                                         |   15 
 fda-2.2.8/fda/R/bsplinepen.R                                       |   12 
 fda-2.2.8/fda/R/create.bspline.basis.R                             |   22 
 fda-2.2.8/fda/R/create.monomial.basis.R                            |    4 
 fda-2.2.8/fda/R/density.fd.R                                       |  269 -
 fda-2.2.8/fda/R/deriv.fd.R                                         |    9 
 fda-2.2.8/fda/R/eval.basis.R                                       |   42 
 fda-2.2.8/fda/R/eval.bifd.R                                        |   35 
 fda-2.2.8/fda/R/eval.fd.R                                          |   50 
 fda-2.2.8/fda/R/eval.monfd.R                                       |   76 
 fda-2.2.8/fda/R/eval.posfd.R                                       |   17 
 fda-2.2.8/fda/R/evaldiag.bifd.R                                    |   13 
 fda-2.2.8/fda/R/fRegress.CV.R                                      |   20 
 fda-2.2.8/fda/R/fRegress.R                                         |   25 
 fda-2.2.8/fda/R/fRegress.fdPar.R                                   |   32 
 fda-2.2.8/fda/R/fRegress.numeric.R                                 |   26 
 fda-2.2.8/fda/R/fRegress.stderr.R                                  |   20 
 fda-2.2.8/fda/R/getbasismatrix.R                                   |   41 
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 fda-2.2.8/fda/R/lambda2df.R                                        |   14 
 fda-2.2.8/fda/R/landmarkreg.R                                      |   49 
 fda-2.2.8/fda/R/monfn.R                                            |   16 
 fda-2.2.8/fda/R/mongrad.R                                          |   24 
 fda-2.2.8/fda/R/monhess.R                                          |   21 
 fda-2.2.8/fda/R/pca.fd.R                                           |   59 
 fda-2.2.8/fda/R/pda.fd.R                                           | 1370 +++++-----
 fda-2.2.8/fda/R/pda.overlay.r                                      |   15 
 fda-2.2.8/fda/R/phaseplanePlot.R                                   |   37 
 fda-2.2.8/fda/R/plot.basisfd.R                                     |    5 
 fda-2.2.8/fda/R/plot.fd.R                                          |    7 
 fda-2.2.8/fda/R/plot.pda.fd.R                                      |    3 
 fda-2.2.8/fda/R/project.basis.R                                    |   10 
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 fda-2.2.8/fda/man/fd.Rd                                            |   13 
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 fda-2.2.8/fda/man/summary.bifd.Rd                                  |    4 
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 170 files changed, 5845 insertions(+), 5313 deletions(-)

More information about fda at CRAN
Permanent link

New package dma with initial version 1.1
Package: dma
Type: Package
Title: Dynamic model averaging
Version: 1.1
Date: 2012-05-13
Author: Tyler H. McCormick, Adrian Raftery, David Madigan
Maintainer: Tyler H. McCormick
Description: Dynamic model averaging for binary and continuous outcomes.
Suggests: MASS, mnormt
License: GPL-2
LazyLoad: yes
Packaged: 2012-05-15 04:27:28 UTC; tylermccormick
Repository: CRAN
Date/Publication: 2012-05-15 06:38:01

More information about dma at CRAN
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