Author: Franck Picard
Diff between segclust versions 0.73 dated 2008-02-14 and 0.74 dated 2008-12-01
More information about segclust at CRAN
Title: SegClust : a package for Segmentation and Segmentation/Clustering.
Description: SegClust corresponds to the implementation of the statistical model described in : Picard et al., A segmentation/clustering model for the analysis of array CGH data. Biometrics, 63(3) 2007. Segmentation functions are also available (from Picard et al. A statistical approach for array CGH data analysis. BMC Bioinformatics. 2005 Feb 11;6:27).
segclust-0.73/segclust/configure |only
segclust-0.73/segclust/src/Makevars.in |only
segclust-0.74/segclust/DESCRIPTION | 8 ++--
segclust-0.74/segclust/R/clustersegments.R | 3 +
segclust-0.74/segclust/R/segclust.R | 21 +++++++++++-
segclust-0.74/segclust/src/Makevars | 4 +-
segclust-0.74/segclust/src/Rwrappers.cc | 39 ++++++++++++++++++++++--
segclust-0.74/segclust/src/Rwrappers.h | 3 +
segclust-0.74/segclust/src/Segmentation_mean.cc | 2 +
segclust-0.74/segclust/src/Segmentation_mixt.cc | 3 +
10 files changed, 71 insertions(+), 12 deletions(-)
Path: /cran/updated | permanent link
Author: Hans Peter Wolf
Diff between relax versions 1.083 dated 2008-06-23 and 1.1 dated 2008-12-01
More information about relax at CRAN
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report
writing, presentation, and programming: relax(), tangleR(),
weaveR(), slider(). "relax" is written in R and Tcl/Tk.
relax creates a new window (top level Tcl/Tk widget) that consists
of two text fields and some buttons and menus.
Text (chunks) and code (chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode.
Results are shown in the lower text field (output field) and
will be transfered to the report field by pressing on Insert.
In this way you get correct reports. These reports can be
loaded again in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling
and weaving. slider() is designed to define sliders for interactive
experiments in a simple way.
The syntax rules of code chunks and text chunks are defined by
the noweb system proposed by Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html).
For integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans
(see: http://members.chello.nl/~j.nijtmans/img.html,
http://home.kpnplanet.nl/~J.Nijtmans@kpnplanet.nl/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg).
If an Img version is integrated in the relax package
the license terms concerning the img package will be found in
the source file of the package, for example in: relax/src/tkimg1.3.tar.gz.
Older windows versions of relax
contain the Tcl/Tk img package, so no further installations
have to be done.
relax-1.083/relax/inst/src/tkimg1.3.tar.gz |only
relax-1.1/relax/DESCRIPTION | 20 -
relax-1.1/relax/R/relax.R | 316 ++++++++++++++++-------
relax-1.1/relax/R/slider.R | 4
relax-1.1/relax/R/tangleR.R | 55 ++--
relax-1.1/relax/R/weaveR.R | 29 ++
relax-1.1/relax/R/weaveRhtml.R | 3
relax-1.1/relax/inst/config/settings.init | 2
relax-1.1/relax/inst/config/settings.relax | 2
relax-1.1/relax/inst/lib/HOWJPEGINRELAX |only
relax-1.1/relax/inst/src/relax.rev | 394 +++++++++++++++++++++++++----
relax-1.1/relax/inst/src/webR.rev | 103 +++++--
relax-1.1/relax/man/relax.Rd | 42 +++
relax-1.1/relax/man/slider.Rd | 4
relax-1.1/relax/man/tangleR.Rd | 4
15 files changed, 777 insertions(+), 201 deletions(-)
Path: /cran/updated | permanent link
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements an analytic shrinkage approach
for inferring the covariance matrix. The estimator is statistically
highly accurate and efficient, applicable to "small n, large p" data,
and always returns a positive definite and well-conditioned matrix.
Nevertheless, this method requires only little a priori modeling and is
computationally cheap. In addition to covariance estimation the
package contains similar functions for inferring variances, correlations,
partial correlations, partial variances, and regression coefficients.
Furthermore, it provides functions for fast SVD computation, for computing
the pseudoinverse, for checking the rank and positive definiteness of a
matrix, and for the computationally fast inversion of the covariance
and correlation matrix.
Diff between corpcor versions 1.4.8 dated 2008-11-17 and 1.5.0 dated 2008-12-01
corpcor-1.4.8/corpcor/CHANGES |only corpcor-1.5.0/corpcor/DESCRIPTION | 6 - corpcor-1.5.0/corpcor/NEWS |only corpcor-1.5.0/corpcor/R/cov.shrink.R | 10 - corpcor-1.5.0/corpcor/R/mpower.R |only corpcor-1.5.0/corpcor/R/powcor.shrink.R |only corpcor-1.5.0/corpcor/R/shrink.internal.R | 141 -------------------------- corpcor-1.5.0/corpcor/man/cor2pcor.Rd | 10 - corpcor-1.5.0/corpcor/man/corpcor-internal.Rd | 3 corpcor-1.5.0/corpcor/man/corpcor.package.Rd | 2 corpcor-1.5.0/corpcor/man/cov.shrink.Rd | 28 ++--- corpcor-1.5.0/corpcor/man/fast.svd.Rd | 12 +- corpcor-1.5.0/corpcor/man/invcov.shrink.Rd | 25 ++-- corpcor-1.5.0/corpcor/man/mpower.Rd |only corpcor-1.5.0/corpcor/man/mvr.shrink.Rd | 22 ++-- corpcor-1.5.0/corpcor/man/pcor.shrink.Rd | 12 +- corpcor-1.5.0/corpcor/man/powcor.shrink.Rd |only corpcor-1.5.0/corpcor/man/pseudoinverse.Rd | 6 - corpcor-1.5.0/corpcor/man/rank.condition.Rd | 8 - corpcor-1.5.0/corpcor/man/rebuild.cov.Rd | 10 - corpcor-1.5.0/corpcor/man/smtools.Rd | 10 - corpcor-1.5.0/corpcor/man/wt.scale.Rd | 8 - 22 files changed, 85 insertions(+), 228 deletions(-)
More information about corpcor at CRAN
Path: /cran/updated | permanent link
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.2 dated 2008-11-04 and 1.1.5.3 dated 2008-12-01
More information about GOSim at CRAN
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
GOSim-1.1.5.2/GOSim/inst/doc/.build.timestamp |only
GOSim-1.1.5.3/GOSim/DESCRIPTION | 6
GOSim-1.1.5.3/GOSim/NAMESPACE | 2
GOSim-1.1.5.3/GOSim/R/GOenrichment.R | 60
GOSim-1.1.5.3/GOSim/R/clusterEvaluation.R | 28
GOSim-1.1.5.3/GOSim/R/geneSimilarity.R | 3
GOSim-1.1.5.3/GOSim/inst/doc/GOSim.Rnw | 3
GOSim-1.1.5.3/GOSim/inst/doc/GOSim.pdf | 1901 ++++++++++++--------------
GOSim-1.1.5.3/GOSim/man/GOenrichment.Rd | 14
GOSim-1.1.5.3/GOSim/man/evaluateClustering.Rd | 24
GOSim-1.1.5.3/GOSim/man/setEvidenceLevel.Rd | 2
11 files changed, 1003 insertions(+), 1040 deletions(-)
Path: /cran/updated | permanent link
Author: David Ardia, Lennart F. Hoogerheide and Herman K. van Dijk
Title: Adaptive Mixture of Student-t distributions
Description: This package provides functions to perform the fitting of an
adaptive mixture of Student-t distributions to a target density through its kernel function.
The mixture approximation can then be used as the importance density
in importance sampling or as the candidate density in the Metropolis-Hastings algorithm to
obtain quantities of interest for the target density itself.
Diff between AdMit versions 1-00.02 dated 2008-06-11 and 1-00.04 dated 2008-12-01
DESCRIPTION | 11 +- R/onload.R | 3 README | 32 +++++--- demo/AdMit.R | 199 ++++++++++++++++++++++++++++++++++++++++++++++++++++-- inst/ArticleJSS.R |only inst/CITATION | 50 ++++++++++--- man/AdMit.Rd | 164 +++++++++++++++++++++++++++++++++++++++++--- man/AdMitIS.Rd | 34 +++++---- man/AdMitMH.Rd | 24 ++++-- man/Mit.Rd | 16 ++-- tests/AdMit.R | 7 + 11 files changed, 461 insertions(+), 79 deletions(-)
More information about AdMit at CRAN
Path: /cran/updated | permanent link
Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: Object oriented framework to simulate ecological (and other) dynamic systems
Diff between simecol versions 0.6 dated 2008-09-22 and 0.6-1 dated 2008-12-01
DESCRIPTION | 7 ++++--- NAMESPACE | 5 +++-- R/accessors.R | 1 + R/sim.R | 3 ++- inst/NEWS | 4 ++++ inst/doc/simecol-howtos.Rnw |only inst/doc/simecol-howtos.pdf |only inst/doc/simecol-introduction.pdf |binary man/p.constrain.Rd | 4 ++-- man/simecol-package.Rd | 10 ++++++---- 10 files changed, 22 insertions(+), 12 deletions(-)
More information about simecol at CRAN
Path: /cran/updated | permanent link
More information about rsm at CRAN
Path: /cran/new | permanent link
Author: Jun Yan
Diff between geepack versions 1.0-14 dated 2008-07-14 and 1.0-15 dated 2008-12-01
More information about geepack at CRAN
Title: Generalized Estimating Equation Package
Description: Generalized estimating equations solver for parameters in mean, scale, and correlation structures, through mean link, scale link, and correlation link. Can also handle clustered categorical responses.
ChangeLog | 9
DESCRIPTION | 4
R/geeglm.R | 602 +++++++++++++++++++++++++++++++-----------------------------
3 files changed, 325 insertions(+), 290 deletions(-)
Path: /cran/updated | permanent link
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.2.3 dated 2008-10-07 and 2.8.0.0 dated 2008-12-01
More information about epicalc at CRAN
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 23 +++++++++++++++--------
man/cc.rd | 2 +-
man/sortBy.rd | 20 ++++++++++++++------
4 files changed, 33 insertions(+), 18 deletions(-)
Path: /cran/updated | permanent link