Author: Nicole Kraemer, Mikio L. Braun
Title: Degrees of Freedom and Confidence Intervals for Partial Least
Squares Regression
Description: The plsdof package provides Degrees of Freedom estimates
for Kernel Partial Least Squares Regression and its kernel
extension. The package also provides model selection based on
various information criteria (aic, bic, gmdl) and based on
cross-validation. For linear Partial Least Squares, the package
computes the approximate distribution of the regression
coefficients. This allows the construction of confidence
intervals and tests.
Diff between plsdof versions 0.1 dated 2009-11-16 and 0.1-1 dated 2009-11-27
DESCRIPTION | 24 ++++++++++++++---------- R/coef.plsdof.R |only R/dA.R |only R/dvvtz.R | 24 +++++++++++++----------- R/kernel.pls.fit.R | 2 +- R/linear.pls.R |only R/vcov.plsdof.R |only man/coef.plsdof.Rd |only man/dA.Rd |only man/kernel.pls.Rd | 4 ++-- man/kernel.pls.fit.Rd | 1 + man/linear.pls.Rd |only man/plsdof-package.Rd | 11 ++++++----- man/vcov.plsdof.Rd |only 14 files changed, 37 insertions(+), 29 deletions(-)
Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.99-3 dated 2009-10-30 and 0.99-4 dated 2009-11-27
ChangeLog | 18 DESCRIPTION | 8 NAMESPACE | 9 R/phylo.R | 1318 +++++++++++++++++++++------------------------ data/Laurasiatherian.RData |binary data/chloroplast.RData |binary data/yeast.RData |binary inst/doc/Rplots.pdf | 4 inst/doc/Trees.pdf |binary inst/doc/phangorn.bib | 15 man/phyDat.Rd | 10 src/init.c | 3 src/phangorn.c | 453 ++++++++------- 13 files changed, 914 insertions(+), 924 deletions(-)
Author: Efthimios S. Motakis, Guy P. Nason, Piotr Fryzlewicz
Title: Variance Stabilization by Data-Driven Haar-Fisz (for
Microarrays)
Description: The package contains the normalizing and variance
stabilizing Data-Driven Haar-Fisz algorithm. Also contains
related algorithms for simulating from certain microarray gene
intensity models and evaluation of certain transformations.
Diff between DDHFm versions 1.0-2.1 dated 2009-02-23 and 1.0-3 dated 2009-11-27
DESCRIPTION | 25 ++++++++++++++----------- inst/doc/DDHFm.pdf |binary man/cDNAdata.Rd | 3 +-- 3 files changed, 15 insertions(+), 13 deletions(-)
Author: Paul Gilbert
Diff between setRNG versions 2008.3-1 dated 2008-03-21 and 2009.11-1 dated 2009-11-27
Title: Set (Normal) Random Number Generator and Seed
Description: SetRNG provides utilities to help set and record the
setting of the seed and the uniform and normal generators used
when a random experiment is run. The utilities can be used in
other functions that do random experiments to simplify
recording and/or setting all the necessary information for
reproducibility. See the vignette and reference manual for
examples.
DESCRIPTION | 22 ++++++++++++++++------
NEWS | 35 ++++++++++++++++++-----------------
R/setRNG.R | 2 +-
S |only
inst/doc/setRNG.pdf |binary
man/getRNG.Rd | 4 ++--
man/setRNG.Rd | 14 ++++++++++----
7 files changed, 47 insertions(+), 30 deletions(-)
Author: Christophe Ambroise, Gilles Grasseau, Mark Hoebeke, Pierre
Latouche, Vincent Miele, Franck Picard
Title: Random graph clustering
Description: Routines for the analysis (unsupervised clustering) of
networks using MIXtures of Erdos-Renyi random graphs
Diff between mixer versions 1.0 dated 2009-11-19 and 1.1 dated 2009-11-27
DESCRIPTION | 6 +++--- NEWS | 5 ++++- inst/CITATION | 2 +- src/Makevars | 6 +++--- src/SparseMatrix.h | 4 +++- 5 files changed, 14 insertions(+), 9 deletions(-)
Author: lp_solve
Diff between lpSolveAPI versions 5.5.0.15 dated 2009-09-28 and 5.5.0.15-1 dated 2009-11-27
Title: Interface to lp_solve 5.5.0.15
Description: The lpSolveAPI package provides an R interface to the
lp_solve library API - lp_solve is a Mixed Integer Linear
Programming (MILP) solver with support for pure linear, (mixed)
integer/binary, semi-continuous and special ordered sets (SOS)
models.
DESCRIPTION | 10 +-
inst/doc/lpSolveAPI.pdf |binary
inst/include/myblas.h | 34 ++++-----
src/Makevars | 8 +-
src/RlpSolveLink.c | 71 +++++++++++--------
src/mmio.c | 107 ++++++++++++++---------------
src/myblas.c | 174 ++++++++++++++++++++++--------------------------
7 files changed, 208 insertions(+), 196 deletions(-)
Author: Ulrike Groemping
Title: Full factorials, orthogonal arrays and base utilities for DoE
packages
Description: This package creates full factorial experimental designs
and designs based on orthogonal arrays for (industrial)
experiments. Additionally, it provides some utility functions
used also by other DoE packages.
Diff between DoE.base versions 0.9-8 dated 2009-11-26 and 0.9-10 dated 2009-11-27
DESCRIPTION | 8 ++++---- R/DesignAccessors.r | 6 +++++- inst/NEWS | 7 +++++++ 3 files changed, 16 insertions(+), 5 deletions(-)