Tue, 16 Jun 2009

Package nplplot updated to version 4.3 with previous version 4.2 dated 2009-04-16

Author: Nandita Mukhopadhyay , Daniel E. Weeks , Xinyu Tang
Title: Plotting non-parametric linkage results
Description: nplplot: Plots curves for non parametric linkage results contained within a file or a table; nplplot.multi: wrapper function for nplplot to graph multiple plot-data files, and save these in PDF or postscript format; nplplot.old: the old nplplot function that combined nplplot and nplplot.multi into one function, please use the other two functions instead.

Diff between nplplot versions 4.2 dated 2009-04-16 and 4.3 dated 2009-06-16

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Package dlm updated to version 1.0-2 with previous version 1.0-1 dated 2009-05-27

Author: Giovanni Petris
Title: Bayesian and Likelihood Analysis of Dynamic Linear Models
Description: Maximum likelihood, Kalman filtering and smoothing, and Bayesian analysis of Normal linear State Space models, also known as Dynamic Linear Models

Diff between dlm versions 1.0-1 dated 2009-05-27 and 1.0-2 dated 2009-06-16

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Package RcmdrPlugin.survival updated to version 0.7-4 with previous version 0.7-3 dated 2009-04-26

Author: John Fox
Title: R Commander Plug-in for the survival Package
Description: This package provides an R Commander plug-in for the survival package, with dialogs for Cox models, parametric survival regression models, estimation of survival curves, and testing for differences in survival curves, along with data-management facilities and a variety of tests, diagnostics and graphs.

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Package CDFt updated to version 1.0.1 with previous version 1.0 dated 2009-06-02

Author: Mathieu Vrac and Paul-Antoine Michelangeli
Title: Statistical downscaling through CDF-transform
Description: This package proposes a statistical downscaling method for cumulative distribution functions (CDF), as well as the computation of the Cram\`er-von Mises statistics U, and the Kolmogorov-Smirnov statistics KS.

Diff between CDFt versions 1.0 dated 2009-06-02 and 1.0.1 dated 2009-06-16

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Package tripack updated to version 1.3-3 with previous version 1.3-2 dated 2009-06-14

Author: Fortran code by R. J. Renka. R functions by Albrecht Gebhardt . With contributions from Stephen Eglen , Sergei Zuyev and Denis White
Title: Triangulation of irregularly spaced data
Description: A constrained two-dimensional Delaunay triangulation package

Diff between tripack versions 1.3-2 dated 2009-06-14 and 1.3-3 dated 2009-06-16

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Package tractor.base updated to version 1.1.0 with previous version 1.0.5 dated 2009-05-14

Author: Jon Clayden
Title: Basic functions for the TractoR (tractography with R) bundle
Description: The tractor.base package consists of functions for working with magnetic resonance images. It can read and write image files stored in Analyze, NIfTI and DICOM formats (DICOM support is read only), generate images for use as regions of interest, and manipulate and visualise images.

Diff between tractor.base versions 1.0.5 dated 2009-05-14 and 1.1.0 dated 2009-06-16

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Package tnet updated to version 0.1.0 with previous version 0.0.6 dated 2009-06-03

Author: Tore Opsahl
Title: tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks
Description: R package to analyse weighted, two-mode, and longitudinal networks.

Diff between tnet versions 0.0.6 dated 2009-06-03 and 0.1.0 dated 2009-06-16

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Package spuRs updated to version 1.0.3 with previous version 1.0.2 dated 2009-03-19

Author: Owen Jones, Robert Maillardet, Andrew Robinson, Olga Borovkova, and Steven Carnie
Title: Functions and Datasets for "An Introduction to Scientific Programming and Simulation, Using R".
Description: This package provides functions and datasets from the book "An Introduction to Scientific Programming and Simulation, Using R".

Diff between spuRs versions 1.0.2 dated 2009-03-19 and 1.0.3 dated 2009-06-16

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Package spatstat updated to version 1.15-4 with previous version 1.15-3 dated 2009-05-14

Author: Adrian Baddeley and Rolf Turner , with substantial contributions of code by Marie-Colette van Lieshout, Rasmus Waagepetersen, Kasper Klitgaard Berthelsen and Dominic Schuhmacher. Additional contributions by Ang Qi Wei, C. Beale, B. Biggerstaff, R. Bivand, F. Bonneu, J. Burgos, J.B. Chen, Y.C. Chin, M. de la Cruz, P.J. Diggle, S. Eglen, A. Gault, M. Genton, P. Grabarnik, C. Graf, J. Franklin, U. Hahn, M. Hering, M.B. Hansen, M. Hazelton, J. Heikkinen, K. Hornik, R. Ihaka, R. John-Chandran, D. Johnson, J. Laake, J. Mateu, P. McCullagh, X.C. Mi, J. Moller, L.S. Nielsen, E. Parilov, J. Picka, M. Reiter, B.D. Ripley, B. Rowlingson, J. Rudge, A. Sarkka, K. Schladitz, B.T. Scott, I.-M. Sintorn, M. Spiess, M. Stevenson, P. Surovy, B. Turlach, A. van Burgel, H. Wang and S. Wong.
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data, mainly Spatial Point Patterns, including multitype/marked points and spatial covariates, in any two-dimensional spatial region. Contains functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, and pixel images. Point process models can be fitted to point pattern data. Cluster type models are fitted by the method of minimum contrast. Very general Gibbs point process models can be fitted to point pattern data using a function ppm similar to lm or glm. Models may include dependence on covariates, interpoint interaction and dependence on marks. Fitted models can be simulated automatically. Also provides facilities for formal inference (such as chi-squared tests) and model diagnostics (including simulation envelopes, residuals, residual plots and Q-Q plots).

Diff between spatstat versions 1.15-3 dated 2009-05-14 and 1.15-4 dated 2009-06-16

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Package rJava updated to version 0.6-3 with previous version 0.6-2 dated 2009-01-26

Author: Simon Urbanek
Title: Low-level R to Java interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.

Diff between rJava versions 0.6-2 dated 2009-01-26 and 0.6-3 dated 2009-06-16

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Package mrt updated to version 0.2 with previous version 0.1 dated 2009-06-08

Author: Daniel B. Wright
Title: Wright & London's Modern Regression Techniques
Description: Datasets and functions from Wright and London's Modern Regression Techniques

Diff between mrt versions 0.1 dated 2009-06-08 and 0.2 dated 2009-06-16

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Package denpro updated to version 0.9.0 with previous version 0.8.4 dated 2008-02-19

Author: Jussi Klemela
Title: Visualization of multivariate, functions, sets, and data
Description: The package provides tools to (1) visualize multivariate density functions and density estimates with level set trees, (2) visualize level sets with shape trees, (3) visualize multivariate data with tail trees, (4) visualize scales of multivariate density estimates with mode graphs and branching maps, and (5) visualize anisotropic spread with 2D volume functions and 2D probability conetent functions. Level set trees visualize mode structure, shape trees visualize shapes of level sets of unimodal densities, and tail trees visualize connected data sets. The kernel estimator is implemented but the package may be applied for visualizing other density estimates.

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Package clim.pact updated to version 2.2-38 with previous version 2.2-37 dated 2009-06-14

Author: Rasmus E. Benestad
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)

Diff between clim.pact versions 2.2-37 dated 2009-06-14 and 2.2-38 dated 2009-06-16

 DESCRIPTION |    8 ++++----
 R/eof.R     |   41 +++++++++++++++++++++++++----------------
 2 files changed, 29 insertions(+), 20 deletions(-)

More information about clim.pact at CRAN
Permanent link

Package boot updated to version 1.2-37 with previous version 1.2-36 dated 2009-03-12

Author: S original by Angelo Canty . R port by Brian Ripley .
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the book "Bootstrap Methods and Their Applications" by A. C. Davison and D. V. Hinkley (1997, CUP).

Diff between boot versions 1.2-36 dated 2009-03-12 and 1.2-37 dated 2009-06-16

 ChangeLog                             |    7 ++++++-
 DESCRIPTION                           |    8 ++++----
 inst/po/en@quot/LC_MESSAGES/R-boot.mo |binary
 inst/po/fr/LC_MESSAGES/R-boot.mo      |binary
 inst/po/ru/LC_MESSAGES/R-boot.mo      |binary
 man/censboot.Rd                       |    1 +
 po/R-boot.pot                         |   14 ++++++++++----
 po/R-en@quot.po                       |   27 ++++++++++++++++++---------
 po/R-fr.po                            |   22 +++++++++++++++-------
 po/R-ru.po                            |   28 ++++++++++++++++++----------
 10 files changed, 72 insertions(+), 35 deletions(-)

More information about boot at CRAN
Permanent link

Package aplpack updated to version 1.2.1 with previous version 1.1.1 dated 2007-09-03

Author: Peter Wolf, Uni Bielefeld
Title: Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, and some slider functions
Description: set of functions for drawing some special plots: stem.leaf plots a stem and leaf plot bagplot plots a bagplot faces plots chernoff faces spin3R for an inspection of a 3-dim point cloud slider functions for interactive graphics

Diff between aplpack versions 1.1.1 dated 2007-09-03 and 1.2.1 dated 2009-06-16

 aplpack-1.1.1/aplpack/man/aplpack.package.Rd          |only
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 aplpack-1.2.1/aplpack/R/bagplot.R                     |   13 
 aplpack-1.2.1/aplpack/R/faces.R                       |  127 +++++
 aplpack-1.2.1/aplpack/R/plot.faces.R                  |   73 ++-
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 aplpack-1.2.1/aplpack/inst/src/doaplpack              |   86 +++-
 aplpack-1.2.1/aplpack/inst/src/faces.rev              |  386 ++++++++++++++----
 aplpack-1.2.1/aplpack/inst/src/ms.rev                 |  219 +++++++++-
 aplpack-1.2.1/aplpack/inst/src/sliderfns.rev          |only
 aplpack-1.2.1/aplpack/man/faces.Rd                    |   50 ++
 aplpack-1.2.1/aplpack/man/slider.Rd                   |only
 aplpack-1.2.1/aplpack/man/slider.bootstrap.lm.plot.Rd |only
 aplpack-1.2.1/aplpack/man/slider.brush.Rd             |only
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 aplpack-1.2.1/aplpack/man/stem.leaf.Rd                |    2 
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More information about aplpack at CRAN
Permanent link

Package VGAM updated to version 0.7-9 with previous version 0.7-8 dated 2009-02-05

Author: Thomas W. Yee
Title: Vector Generalized Linear and Additive Models
Description: Vector generalized linear and additive models, and associated models (Reduced-Rank VGLMs, Quadratic RR-VGLMs, Reduced-Rank VGAMs). This package fits many models and distribution by maximum likelihood estimation (MLE) or penalized MLE. Also fits constrained ordination models in ecology.

Diff between VGAM versions 0.7-8 dated 2009-02-05 and 0.7-9 dated 2009-06-16

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 VGAM-0.7-9/VGAM/R/build.terms.vlm.q              |   74 
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 VGAM-0.7-9/VGAM/man/zapoisUC.Rd                  |    3 
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 286 files changed, 8484 insertions(+), 6912 deletions(-)

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Package TripleR updated to version 0.1.1 with previous version 0.1 dated 2009-06-02

Author: S.C. Schmukle, F.D. Schoenbrodt and M.D. Back
Title: Social Relation Model (SRM) analyses for single round-robin groups
Description: Social Relation Model (SRM) analysis for a single Round-Robin group are performed. These analyses are either based on one manifest variable, one latent construct measured by two manifest variables, two manifest variables and their bivariate relations, or two latent constructs each measured by two manifest variables (in the last case, four Round-Robin matrices have to be provided)

Diff between TripleR versions 0.1 dated 2009-06-02 and 0.1.1 dated 2009-06-16

 DESCRIPTION            |    8 +-
 R/RR.r                 |   16 +---
 data/liking_a.tab      |  110 ++++++++++++++--------------
 data/liking_b.tab      |  110 ++++++++++++++--------------
 data/metaliking_a.tab  |  110 ++++++++++++++--------------
 data/metaliking_b.tab  |  110 ++++++++++++++--------------
 man/RR.Rd              |  190 ++++++++++++++++++++++++-------------------------
 man/TripleR-package.Rd |   60 +++++++--------
 8 files changed, 356 insertions(+), 358 deletions(-)

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New package SigWinR with initial version 1.0
Package: SigWinR
Encoding: latin1
Type: Package
Title: SigWin-detector implementation in R
Version: 1.0
Date: 2009-06-08
Author: Wim de Leeuw
Maintainer: Wim de Leeuw
Description: Implementation of the SigWin-detector for the detection of regions of increased or decreased gene expression (RIDGEs and anti-RIDGES) in transcriptome maps and the presentation in so called RIDGEOGRAMs as described by Marcia A. Inda et al. [BMC Res Notes 2008; 1:63]
License: GPL
Packaged: 2009-06-15 10:03:44 UTC; wdeleeuw
Repository: CRAN
Date/Publication: 2009-06-16 13:09:36

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Package EMJumpDiffusion updated to version 1.4.1 with previous version 1.4 dated 2009-05-06

Author: Matthias Graser
Title: EM-Algorithm for Jump Diffusion processes
Description: Calculates parameters for Jump Diffusion processes via EM-Algorithm. The jumps-times are considered to be bernoulli distributed with normally distributed jump-sizes.

Diff between EMJumpDiffusion versions 1.4 dated 2009-05-06 and 1.4.1 dated 2009-06-16

 DESCRIPTION                    |    6 +++---
 R/EMjump.R                     |    1 +
 man/EMJumpDiffusion-package.Rd |    2 +-
 3 files changed, 5 insertions(+), 4 deletions(-)

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New package mar1s with initial version 2.0-1
Package: mar1s
Type: Package
Title: Multiplicative AR(1) with Seasonal Processes
Version: 2.0-1
Date: 2009-06-12
Author: Andrey Paramonov
Maintainer: Andrey Paramonov
Depends: R (>= 2.8.1), cmrutils (>= 1.1-1), fda
Description: Multiplicative AR(1) with Seasonal is a stochastic process model built on top of AR(1). The package provides the following procedures for MAR(1)S processes: fit, compose, decompose, advanced simulate and predict.
License: GPL (>= 3)
URL: http://aparamon.msk.ru/svn/study/R-packages/mar1s/
Packaged: 2009-06-12 15:27:09 UTC; pent
Repository: CRAN
Date/Publication: 2009-06-16 06:40:23

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Package diamonds updated to version 1.0-5 with previous version 1.0-4 dated 2007-10-27

Author: Denis White
Title: Analysis and sampling grids from diamond partitions
Description: Functions for illustrating aperture-4 diamond partitions in the plane, or on the surface of an octahedron or icosahedron, for use as analysis or sampling grids.

Diff between diamonds versions 1.0-4 dated 2007-10-27 and 1.0-5 dated 2009-06-16

 diamonds-1.0-4/diamonds/INDEX        |only
 diamonds-1.0-5/diamonds/DESCRIPTION  |   14 +++++++++-----
 diamonds-1.0-5/diamonds/R/diamonds.R |    3 +++
 3 files changed, 12 insertions(+), 5 deletions(-)

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New package cmrutils with initial version 1.2
Package: cmrutils
Type: Package
Title: Misc Functions of the Center for the Mathematical Research
Version: 1.2
Date: 2009-05-25
Author: Andrey Paramonov
Maintainer: Irakliy Sariev
Depends: R (>= 2.8.1), grDevices, chron
Imports: grDevices
Description: A collection of useful helper routines developed by students of the Center for the Mathematical Research, Stankin, Moskow.
License: GPL (>= 3)
URL: http://aparamon.msk.ru/svn/study/R-packages/cmrutils/
Packaged: 2009-05-26 17:25:29 UTC; root
Repository: CRAN
Date/Publication: 2009-06-16 06:40:17

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New package aroma.core with initial version 1.1.2
Package: aroma.core
Version: 1.1.2
Date: 2009-06-14
Title: Support package for aroma.affymetrix et al.
Author: Henrik Bengtsson
Maintainer: Henrik Bengtsson
Depends: R (>= 2.6.0), R.methodsS3 (>= 1.0.3), R.oo (>= 1.4.5), R.utils (>= 1.1.6), R.cache (>= 0.1.7), R.filesets (>= 0.5.1), R.rsp (>= 0.3.4), matrixStats (>= 0.1.4), digest (>= 0.3.1), aroma.light (>= 1.12.2)
Suggests: EBImage (>= 2.2.0), Cairo (>= 1.3-5), sfit (>= 0.1.5), expectile (>= 0.2.3), GLAD (>= 1.12.0), DNAcopy (>= 1.18.0), HaarSeg (>= 0.0.2)
Imports: affxparser (>= 1.10.1), geneplotter (>= 1.16.0), RColorBrewer (>= 1.0-2)
Description: This package is a private support package for aroma.affymetrix et al. The methods and classes of this package are independent of platform. It's API is in alpha and beta stage.
License: LGPL (>= 2.1)
URL: http://www.braju.com/R/aroma.affymetrix/
PatchURL: http://www.braju.com/R/
LazyLoad: TRUE
biocViews: Infrastructure, Microarray, DataImport
Packaged: 2009-06-14 22:22:22 UTC; hb
Repository: CRAN
Date/Publication: 2009-06-16 06:39:58

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