Author: John Fox, Michael Friendly, and Georges Monette
Title: Visualizing Tests in Multivariate Linear Models
Description: Represents sums-of-squares-and-products matrices for
linear hypotheses and for error using ellipses (in two
dimensions) and ellipsoids (in three dimensions).
Diff between heplots versions 0.8-6 dated 2009-04-19 and 0.8-9 dated 2009-07-23
.project |only DESCRIPTION | 12 ++++++------ NAMESPACE | 4 +++- R/ellipse3d.axes.R |only R/heplot.mlm.R | 3 ++- R/heplot1d.R |only R/heplot3d.mlm.R | 3 ++- R/termMeans.R |only data/Bees.rda |only data/FootHead.rda |only data/RootStock.rda |only demo/00Index | 3 ++- demo/bees.contrasts.R |only inst/CHANGES | 15 +++++++++++++++ man/Bees.Rd |only man/FootHead.Rd |only man/RootStock.Rd |only man/ellipse3d.axes.Rd |only man/heplot-package.Rd | 4 ++-- man/heplot.Rd | 27 +++++++++++++++++++++++---- man/heplot1d.Rd |only man/heplot3d.Rd | 18 +++++++++++++----- man/heplots-internal.Rd | 1 + 23 files changed, 69 insertions(+), 21 deletions(-)
Author: Mathias Drton
Diff between SIN versions 0.3 dated 2006-08-11 and 0.4 dated 2009-07-23
Title: A SINful Approach to Selection of Gaussian Graphical Markov
Models
Description: This package provides routines to perform SIN model
selection as described in Drton & Perlman (2004, 2008). The
selected models are represented in the format of the 'ggm'
package, which allows in particular parameter estimation in the
selected model.
DESCRIPTION | 32 ++++++++++++++++++--------------
INDEX | 4 ++--
man/plotBGpvalues.Rd | 7 +++----
man/plotCGpvalues.Rd | 7 +++----
man/plotDAGpvalues.Rd | 7 +++----
man/plotUGpvalues.Rd | 7 +++----
man/simpvalueMx.Rd | 7 +++----
man/simpvalueVec.Rd | 7 +++----
man/sinBG.Rd | 7 +++----
man/sinCG.Rd | 7 +++----
man/sinDAG.Rd | 7 +++----
man/sinUG.Rd | 7 +++----
12 files changed, 50 insertions(+), 56 deletions(-)
Author: Yurii Aulchenko, Maksim Struchalin
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.4-2 dated 2009-01-29 and 1.4-3 dated 2009-07-23
GenABEL-1.4-2/GenABEL/tags |only GenABEL-1.4-3/GenABEL/CHANGES.LOG | 20 GenABEL-1.4-3/GenABEL/DESCRIPTION | 17 GenABEL-1.4-3/GenABEL/GenABEL |only GenABEL-1.4-3/GenABEL/R.save |only GenABEL-1.4-3/GenABEL/R/GASurv.R | 4 GenABEL-1.4-3/GenABEL/R/HWE.show.R | 4 GenABEL-1.4-3/GenABEL/R/Xcheck.R | 2 GenABEL-1.4-3/GenABEL/R/Xfix.R | 6 GenABEL-1.4-3/GenABEL/R/add.phdata.R | 4 GenABEL-1.4-3/GenABEL/R/add.plot.R | 4 GenABEL-1.4-3/GenABEL/R/ases.R | 22 GenABEL-1.4-3/GenABEL/R/autosomal.R | 4 GenABEL-1.4-3/GenABEL/R/catable.R | 4 GenABEL-1.4-3/GenABEL/R/ccfast.R | 2 GenABEL-1.4-3/GenABEL/R/ccfast.new.R | 2 GenABEL-1.4-3/GenABEL/R/check.marker.R | 4 GenABEL-1.4-3/GenABEL/R/check.marker.internal.R | 12 GenABEL-1.4-3/GenABEL/R/check.trait.R | 2 GenABEL-1.4-3/GenABEL/R/checkphengen.R | 2 GenABEL-1.4-3/GenABEL/R/convert.snp.affymetrix.R | 6 GenABEL-1.4-3/GenABEL/R/descriptives.marker.R | 4 GenABEL-1.4-3/GenABEL/R/descriptives.scan.R | 2 GenABEL-1.4-3/GenABEL/R/descriptives.trait.R | 4 GenABEL-1.4-3/GenABEL/R/dprfast.R | 4 GenABEL-1.4-3/GenABEL/R/egscore.R | 9 GenABEL-1.4-3/GenABEL/R/egscore.old.R | 6 GenABEL-1.4-3/GenABEL/R/export.merlin.R | 2 GenABEL-1.4-3/GenABEL/R/fcc.R | 2 GenABEL-1.4-3/GenABEL/R/fcc.new.R | 2 GenABEL-1.4-3/GenABEL/R/formetascore.R | 10 GenABEL-1.4-3/GenABEL/R/grammar.R | 4 GenABEL-1.4-3/GenABEL/R/hom.R | 30 GenABEL-1.4-3/GenABEL/R/hom.old.R | 4 GenABEL-1.4-3/GenABEL/R/ibs.R | 10 GenABEL-1.4-3/GenABEL/R/ibs.old.R | 10 GenABEL-1.4-3/GenABEL/R/imphetcheck.R | 2 GenABEL-1.4-3/GenABEL/R/merge.gwaa.data.R | 8 GenABEL-1.4-3/GenABEL/R/merge.snp.data.R | 4 GenABEL-1.4-3/GenABEL/R/mlreg.R | 6 GenABEL-1.4-3/GenABEL/R/mlreg.p.R | 6 GenABEL-1.4-3/GenABEL/R/mmscore.R | 4 GenABEL-1.4-3/GenABEL/R/perid.summary.R | 8 GenABEL-1.4-3/GenABEL/R/plot.check.marker.R | 2 GenABEL-1.4-3/GenABEL/R/plot.scan.gwaa.R | 2 GenABEL-1.4-3/GenABEL/R/polygenic.R | 6 GenABEL-1.4-3/GenABEL/R/qtscore.R | 21 GenABEL-1.4-3/GenABEL/R/r2fast.R | 4 GenABEL-1.4-3/GenABEL/R/r2fast.old.R | 4 GenABEL-1.4-3/GenABEL/R/redundant.R | 2 GenABEL-1.4-3/GenABEL/R/refresh.gwaa.data.R | 4 GenABEL-1.4-3/GenABEL/R/rhofast.R | 4 GenABEL-1.4-3/GenABEL/R/save.snp.data.R | 4 GenABEL-1.4-3/GenABEL/R/scan.glm.2D.R | 2 GenABEL-1.4-3/GenABEL/R/scan.glm.R | 2 GenABEL-1.4-3/GenABEL/R/scan.haplo.2D.R | 2 GenABEL-1.4-3/GenABEL/R/scan.haplo.R | 2 GenABEL-1.4-3/GenABEL/R/show.ncbi.R | 2 GenABEL-1.4-3/GenABEL/R/snp.names.R | 10 GenABEL-1.4-3/GenABEL/R/snp.subset.R | 4 GenABEL-1.4-3/GenABEL/R/summary.snp.data.R | 2 GenABEL-1.4-3/GenABEL/R/ztransform.R | 10 GenABEL-1.4-3/GenABEL/inst/doc/ABEL-tutorial.pdf |30757 ++++------------------- GenABEL-1.4-3/GenABEL/man/GenABEL-package.Rd | 4 GenABEL-1.4-3/GenABEL/man/check.marker.Rd | 2 GenABEL-1.4-3/GenABEL/man/egscore.Rd | 30 GenABEL-1.4-3/GenABEL/man/hom.Rd | 41 GenABEL-1.4-3/GenABEL/man/hom.old.Rd | 2 GenABEL-1.4-3/GenABEL/man/ibs.Rd | 11 GenABEL-1.4-3/GenABEL/man/snp.data-class.Rd | 2 GenABEL-1.4-3/GenABEL/src/gwaa.c | 51 GenABEL-1.4-3/GenABEL/src/lm_gwaa.cpp | 9 GenABEL-1.4-3/GenABEL/src/reg1.h | 4 GenABEL-1.4-3/GenABEL/src/reg1data.h | 7 GenABEL-1.4-3/GenABEL/tmp |only 75 files changed, 6846 insertions(+), 24425 deletions(-)
Author: James Curran
Diff between Bolstad versions 0.2-14 dated 2008-11-10 and 0.2-15 dated 2009-07-23
Title: Bolstad functions
Description: A set of R functions and data sets for the book
Introduction to Bayesian Statistics, Bolstad, W.M. (2007), John
Wiley & Sons ISBN 0-471-27020-2
DESCRIPTION | 24 ++++++++++++++----------
R/bayes.lin.reg.r | 20 ++++++++++----------
man/binodp.Rd | 2 +-
3 files changed, 25 insertions(+), 21 deletions(-)
Author: Robin K. S. Hankin
Title: Bayesian Analysis of Computer Code Output (BACCO)
Description: The BACCO bundle of packages is replaced by the BACCO
package, which provides a vignette that illustrates the
constituent packages (emulator, approximator, calibrator) in
use.
Diff between BACCO versions 2.0 dated 2009-07-18 and 2.0-2 dated 2009-07-23
DESCRIPTION | 6 +++--- R |only inst/doc/both_papers.pdf | 14 +++++++------- 3 files changed, 10 insertions(+), 10 deletions(-)