bgx: Bayesian Gene eXpression
Version 1.42.0

Bayesian integrated analysis of Affymetrix GeneChips

Browse man pages Browse package API and functions Browse package files

AuthorErnest Turro, Graeme Ambler, Anne-Mette K Hein
Bioconductor views DifferentialExpression Microarray
Date of publicationNone
MaintainerErnest Turro <et341@cam.ac.uk>
LicenseGPL-2
Version1.42.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("bgx")

Man pages

analysis.bgx: Analyse BGX output.
bgx: Fully Bayesian integrated approach to the analysis of...
mcmc.bgx: Internal wrapper function for calling the bgx C++ function.
readOutput.bgx: Read in the output from a BGX run.
saveAffinityPlot.bgx: Save a plot of affinity categorisation.
setupVars.bgx: Initialise variables needed to run BGX simulation.

Functions

analysis.bgx Man page
bgx Man page
loessNorm Source code
mcmc.bgx Man page
meanNorm Source code
plotDEDensity Man page Source code
plotDEHistogram Man page Source code
plotDiffRank Man page Source code
plotExpressionDensity Man page Source code
rankByDE Man page Source code
readOutput.bgx Man page Source code
readSingle.bgx Source code
saveAffinityPlot.bgx Man page Source code
setupVars.bgx Man page
standalone.bgx Man page

Files

COPYING
DESCRIPTION
NAMESPACE
R
R/analysis.bgx.R
R/bgx.R
R/mcmc.bgx.R
R/saveAffinityPlot.bgx.R
R/setupVars.bgx.R
R/standalone.bgx.R
aclocal.m4
boostIncl.tar.gz
build
build/vignette.rds
config.guess
config.sub
configure
configure.ac
configure.win
inst
inst/doc
inst/doc/bgx.R
inst/doc/bgx.Rnw
inst/doc/bgx.pdf
install-sh
man
man/analysis.bgx.Rd
man/bgx.Rd
man/mcmc.bgx.Rd
man/readOutput.bgx.Rd
man/saveAffinityPlot.bgx.Rd
man/setupVars.bgx.Rd
missing
src
src/Makefile.standalone
src/Makevars
src/Makevars.in
src/Makevars.win
src/TierQuan.hh
src/bgx.cc
src/bgx.hh
src/bgx_frontend.cc
src/bgx_updates.hh
src/m4
src/m4/ax_boost.m4
src/m4/ax_cflags_gcc_option.m4
src/m4/ax_check_compiler_flags.m4
src/m4/ax_compiler_vendor.m4
src/m4/ax_gcc_archflag.m4
src/m4/ax_gcc_x86_cpuid.m4
src/pnorm.hh
src/qnorm.c
src/qnorm.h
src/rand.hh
src/rundir.cc
src/rundir.hh
src/rwm.hh
src/sokal.cc
src/sokal.hh
vignettes
vignettes/bgx.Rnw
bgx documentation built on May 20, 2017, 10:08 p.m.