Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-8 dated 2009-03-10 and 1.0.3-9 dated 2009-05-29
DESCRIPTION | 14 ++++++++------ NAMESPACE | 4 +++- R/jags.R | 6 +++--- R/read.data.R |only man/jags.model.Rd | 2 +- man/jags.object.Rd | 11 ++++++++++- man/read.data.Rd |only 7 files changed, 25 insertions(+), 12 deletions(-)
Author: Anne-Laure Boulesteix
Diff between plsgenomics versions 1.2-2 dated 2007-02-15 and 1.2-4 dated 2009-05-29
Title: PLS analyses for genomics
Description: This package provides routines for PLS-based genomic
analyses. It implements PLS methods for classification with
microarray data and prediction of transcription factor
activities from combined ChIP-chip analysis. The >=1.2-1
versions include two new classification methods for microarray
data: GSIM and Ridge PLS.
plsgenomics-1.2-2/plsgenomics/COPYING |only
plsgenomics-1.2-4/plsgenomics/DESCRIPTION | 34 ++++++++--------
plsgenomics-1.2-4/plsgenomics/copying |only
plsgenomics-1.2-4/plsgenomics/man/Colon.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/SRBCT.Rd | 3 -
plsgenomics-1.2-4/plsgenomics/man/TFA.estimate.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/gsim.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/gsim.cv.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/mgsim.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/mgsim.cv.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/mrpls.Rd | 6 +-
plsgenomics-1.2-4/plsgenomics/man/mrpls.cv.Rd | 6 +-
plsgenomics-1.2-4/plsgenomics/man/pls.lda.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/pls.lda.cv.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/pls.regression.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/pls.regression.cv.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/preprocess.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/rpls.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/rpls.cv.Rd | 2
plsgenomics-1.2-4/plsgenomics/man/variable.selection.Rd | 2
20 files changed, 40 insertions(+), 37 deletions(-)
Author: Göran Broström
Title: Generalized linear models with clustering
Description: A Maximum Likelihood and bootstrap approach to mixed
models
Diff between glmmML versions 0.81-4 dated 2009-02-11 and 0.81-5 dated 2009-05-29
ChangeLog | 3 +++ DESCRIPTION | 13 ++++++++----- src/glmmb0.c | 4 ++-- 3 files changed, 13 insertions(+), 7 deletions(-)
Author: Friedrich Leisch and Bettina Gruen
Title: Flexible Mixture Modeling
Description: FlexMix implements a general framework for finite mixtures
of regression models using the EM algorithm. FlexMix provides
the E-step and all data handling, while the M-step can be
supplied by the user to easily define new models. Existing
drivers implement mixtures of standard linear models,
generalized linear models and model-based clustering.
Diff between flexmix versions 2.2-0 dated 2008-10-03 and 2.2-3 dated 2009-05-29
flexmix-2.2-0/flexmix/R/FLXMCmvpois.R |only flexmix-2.2-0/flexmix/R/classes.R |only flexmix-2.2-3/flexmix/DESCRIPTION | 22 flexmix-2.2-3/flexmix/NAMESPACE | 8 flexmix-2.2-3/flexmix/NEWS | 13 flexmix-2.2-3/flexmix/R/allClasses.R |only flexmix-2.2-3/flexmix/R/allGenerics.R | 7 flexmix-2.2-3/flexmix/R/flexmix.R | 40 flexmix-2.2-3/flexmix/R/flxdist.R |only flexmix-2.2-3/flexmix/R/flxmcmvpois.R |only flexmix-2.2-3/flexmix/R/glmFix.R | 4 flexmix-2.2-3/flexmix/R/group.R |only flexmix-2.2-3/flexmix/R/infocrit.R | 10 flexmix-2.2-3/flexmix/R/models.R | 67 flexmix-2.2-3/flexmix/R/plot-flexmix.R | 4 flexmix-2.2-3/flexmix/R/rFLXmodel.R |only flexmix-2.2-3/flexmix/R/refit.R | 24 flexmix-2.2-3/flexmix/R/rflexmix.R |only flexmix-2.2-3/flexmix/R/utils.R | 28 flexmix-2.2-3/flexmix/inst/CITATION | 18 flexmix-2.2-3/flexmix/inst/NEWS | 13 flexmix-2.2-3/flexmix/inst/doc/flexmix-intro.pdf | 4393 +++++++++------ flexmix-2.2-3/flexmix/inst/doc/mixture-regressions.pdf |binary flexmix-2.2-3/flexmix/inst/doc/mixture.bib | 34 flexmix-2.2-3/flexmix/inst/doc/regression-examples.pdf | 4948 +++++++++++------ flexmix-2.2-3/flexmix/man/FLXMCmvcombi.Rd |only flexmix-2.2-3/flexmix/man/FLXdist-class.Rd | 9 flexmix-2.2-3/flexmix/man/FLXdist.Rd |only flexmix-2.2-3/flexmix/man/group.Rd |only flexmix-2.2-3/flexmix/man/refit.Rd | 9 flexmix-2.2-3/flexmix/man/rflexmix.Rd |only flexmix-2.2-3/flexmix/tests/binomial.Rout.save | 6 32 files changed, 6133 insertions(+), 3524 deletions(-)
Author: Anne-Laure Boulesteix
Diff between exactmaxsel versions 1.0-2 dated 2007-02-15 and 1.0-4 dated 2009-05-29
Title: Maximally selected statistics for binary response variables -
Exact methods
Description: This package computes the exact distribution of some
maximally selected statistics in the following setting: the
'response' variable is binary, the splitting variable may be
nominal, ordinal or continuous. Currently, the package
implements the chi-square statistic and the Gini-index.
exactmaxsel-1.0-2/exactmaxsel/COPYING |only
exactmaxsel-1.0-4/exactmaxsel/DESCRIPTION | 27 ++++++++++++-----------
exactmaxsel-1.0-4/exactmaxsel/copying |only
exactmaxsel-1.0-4/exactmaxsel/man/Fcat.Rd | 8 +++---
exactmaxsel-1.0-4/exactmaxsel/man/Ford.Rd | 6 ++---
exactmaxsel-1.0-4/exactmaxsel/man/Ford2.rd | 12 ++++------
exactmaxsel-1.0-4/exactmaxsel/man/birth.Rd | 5 +---
exactmaxsel-1.0-4/exactmaxsel/man/boundary.Rd | 4 +--
exactmaxsel-1.0-4/exactmaxsel/man/ginigain.Rd | 4 +--
exactmaxsel-1.0-4/exactmaxsel/man/maxsel.Rd | 20 +++++++----------
exactmaxsel-1.0-4/exactmaxsel/man/maxsel.test.Rd | 19 +++++++---------
11 files changed, 51 insertions(+), 54 deletions(-)
Author: Tomoaki Nakatani
Diff between ccgarch versions 0.1.4-1 dated 2009-05-11 and 0.1.4-2 dated 2009-05-29
Title: Conditional Correlation GARCH models
Description: Functions for estimating and simulating the family of the
CC-GARCH models.
DESCRIPTION | 8 ++++----
R/grad_dcc2.R | 9 ++++++---
R/loglik_dcc.R | 5 +++--
man/loglik_dcc.Rd | 25 ++++++++++++++++++++++++-
4 files changed, 37 insertions(+), 10 deletions(-)
Author: Marc Schwartz
Diff between WriteXLS versions 1.6.0 dated 2009-03-31 and 1.7.1 dated 2009-05-29
Title: Cross-platform Perl based R function to create Excel 2003 (XLS)
files
Description: Cross-platform perl based R function to create Excel (XLS)
files from one or more data frames. Each data frame will be
written to a separate named worksheet in the Excel spreadsheet.
The worksheet name will be the name of the data frame it
contains or can be specified by the user.
DESCRIPTION | 17 ++++------
R/WriteXLS.R | 73 ++++++++++++++++++++++++++++++++++++++++--
R/testPerl.R | 37 ++++++++++++---------
inst/Perl/WriteXLS.pl | 36 +++++++++++++++++----
man/WriteXLS.Rd | 85 ++++++++++++++++++++++++++++++++++++++------------
man/testPerl.Rd | 5 +-
6 files changed, 195 insertions(+), 58 deletions(-)
Author: Anne-Laure Boulesteix
Diff between WilcoxCV versions 1.0-1 dated 2007-04-11 and 1.0-2 dated 2009-05-29
Title: Wilcoxon-based variable selection in cross-validation
Description: This package provides functions to perform fast variable
selection based on the Wilcoxon rank sum test in the
cross-validation or Monte-Carlo cross-validation settings, for
use in microarray-based binary classification.
DESCRIPTION | 21 +++++++++++++--------
R/wilcox.selection.split.R | 8 ++------
R/wilcox.split.R | 15 +++++++++------
R/wilcox.split31.07essai.R |only
man/generate.cv.Rd | 4 ++--
man/generate.split.Rd | 4 ++--
man/wilcox.selection.split.Rd | 4 ++--
man/wilcox.split.Rd | 4 ++--
8 files changed, 32 insertions(+), 28 deletions(-)
Author: Anne-Laure Boulesteix
Diff between SNPmaxsel versions 1.0-1 dated 2007-06-11 and 1.0-3 dated 2009-05-29
Title: Maximally selected statistics for SNP data
Description: This package implements asymptotic methods related to
maximally selected statistics, with applications to SNP data.
DESCRIPTION | 19 +++++++++++--------
man/Fasymp.rd | 8 ++++----
man/maxsel.asymp.test.rd | 4 ++--
man/maxsel.rd | 4 ++--
man/transf.inter.rd | 4 ++--
5 files changed, 21 insertions(+), 18 deletions(-)
Author: Anne-Laure Boulesteix
Diff between MAclinical versions 1.0-2 dated 2008-09-28 and 1.0-4 dated 2009-05-29
Title: Class prediction based on microarray data and clinical
parameters
Description: 'Maclinical' implements class prediction using both
microarray data and clinical parameters. It addresses the
question of the additional predictive value of microarray data.
Class prediction is performed using a two-step method combining
(pre-validated) PLS dimension reduction and random forests.
DESCRIPTION | 23 +++++++++++++++--------
man/generate.learningsets.rd | 6 +++---
man/logistic_z.rd | 2 +-
man/plsrf_x.rd | 2 +-
man/plsrf_x_pv.rd | 2 +-
man/plsrf_xz.rd | 2 +-
man/plsrf_xz_pv.rd | 2 +-
man/rf_z.rd | 4 ++--
man/simulate.rd | 2 +-
man/svm.rd | 2 +-
man/testclass.rd | 2 +-
man/testclass_simul.rd | 2 +-
12 files changed, 29 insertions(+), 22 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.2-1 dated 2009-02-20 and 2.2-2 dated 2009-05-29
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear
regression and design by treed Gaussian processes with jumps to
the limiting linear model (LLM). Special cases also
implemented include Bayesian linear models, CART, treed linear
models, stationary separable and isotropic Gaussian processes.
Provides 1-d and 2-d plotting functions (with projection and
slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported. Sequential experimental
design and adaptive sampling functions are also provided,
including ALM, ALC, and expected improvement. The latter
supports derivative-free optimization of noisy black-box
functions.
ChangeLog | 12 +++++++++++-
DESCRIPTION | 37 +++++++++++++++++++++----------------
R/tgp.R | 2 +-
inst/doc/tgp.Rnw | 2 +-
inst/doc/tgp2.Rnw | 2 +-
5 files changed, 35 insertions(+), 20 deletions(-)
Author: Duncan Murdoch
Title: Support for orientation data
Description: Representations, conversions and display of orientation
SO(3) data. See the orientlib help topic for details.
Diff between orientlib versions 0.9.1 dated 2009-01-26 and 0.9.2 dated 2009-05-29
orientlib-0.9.1/orientlib/INDEX |only orientlib-0.9.2/orientlib/DESCRIPTION | 31 +++++----- orientlib-0.9.2/orientlib/NEWS | 8 ++ orientlib-0.9.2/orientlib/R/boats.r | 49 +++-------------- orientlib-0.9.2/orientlib/inst/CITATION |only orientlib-0.9.2/orientlib/man/boat3d.Rd | 17 +---- orientlib-0.9.2/orientlib/man/orientlib.Rd | 13 +++- orientlib-0.9.2/orientlib/man/weighted.mean-methods.Rd | 7 +- 8 files changed, 53 insertions(+), 72 deletions(-)
Author: Roger Bivand
Diff between classInt versions 0.1-9 dated 2008-01-19 and 0.1-11 dated 2009-05-29
Title: Choose univariate class intervals
Description: A package for choosing univariate class intervals for
mapping or other graphics purposes
ChangeLog | 19 +++++++++++
DESCRIPTION | 14 +++++---
R/classInt.R | 83 ++++++++++++++++++++++++++++++++++++++++----------
man/classIntervals.Rd | 20 ++++++++++--
man/findColours.Rd | 2 -
5 files changed, 114 insertions(+), 24 deletions(-)
Author: Michael Hoehle with contributions by Wei Liu
Title: Confidence intervals and sample size determination for a
binomial proportion under simple random sampling and pooled
sampling
Description: A suite of functions to compute confidence intervals and
necessary sample sizes for the parameter p of the Bernoulli
B(p) distribution under simple random sampling or under pooled
sampling. Such computations are e.g. of interest when
investigating the incidence or prevalence in populations. The
package contains functions to compute coverage probabilities
and coverage coefficients of the provided confidence intervals
procedures. Sample size calculations are based on expected
length.
Diff between binomSamSize versions 0.1-1 dated 2009-05-18 and 0.1-2 dated 2009-05-29
DESCRIPTION | 8 ++++---- man/binom.liubailey.Rd | 14 +++++++++++--- man/binomSamSize-package.Rd | 8 +++++++- man/ciss.liubailey.Rd | 28 +++++++++++++++------------- 4 files changed, 37 insertions(+), 21 deletions(-)
More information about RthroughExcelWorkbooksInstaller at CRAN
Permanent link
Author: Merlise Clyde
Diff between BAS versions 0.1 dated 2009-03-02 and 0.3 dated 2009-05-29
Title: Bayesian Model Averaging using Bayesian Adaptive Sampling
Description: Package for Bayesian Model Averaging in linear models
using stochastic or deterministic sampling without replacement
from posterior distributions. Prior distributions on
coefficients are from Zellner's g-prior or mixtures of g-priors
corresponding to the Zellner-Siow Cauchy Priors or the Liang et
al hyper-g priors (to appear JASA 2008). Other model selection
criterian include AIC and BIC. Sampling probabilities may be
updated based on the sampled models. Allows uniform or
beta-binomial prior distributions on models.
CHANGELOG |only
DESCRIPTION | 44 +++++++++++-----------
INDEX | 4 ++
R/EB.bma.R | 11 +++--
R/bas.R | 61 ++++++++++++++++++------------
R/image.bma.R | 2 -
R/modelpriors.R |only
R/predict.bma.R | 12 ++++--
R/update.bma.R | 4 +-
demo/BAS.USCrime.R | 1
demo/BAS.hald.R | 11 ++++-
man/Bernoulli.Rd |only
man/Uniform.Rd |only
man/bas.Rd | 84 +++++++++++++++++++++++++-----------------
man/beta.binomial.Rd |only
man/fitted.bma.Rd | 2 -
man/image.bma.Rd | 10 ++---
man/plot.bma.Rd | 17 +++++++-
man/predict.bma.Rd | 17 +++++---
src/bayesglm.c |only
src/bayesreg.c | 99 ++++++++++++++++++++------------------------------
src/deterministic.c | 11 +++--
src/mem.c | 17 ++++++++
src/probabilities.c |only
src/sampleworep.c | 19 ++++++---
src/sampling.h | 12 +++++-
src/tree-structures.c | 8 +++-
27 files changed, 265 insertions(+), 181 deletions(-)