BAGS: A Bayesian Approach for Geneset Selection
Version 2.16.0

R package providing functions to perform geneset significance analysis over simple cross-sectional data between 2 and 5 phenotypes of interest.

Browse man pages Browse package API and functions Browse package files

AuthorAlejandro Quiroz-Zarate
Bioconductor views Bayesian
Date of publicationNone
MaintainerAlejandro Quiroz-Zarate <aquiroz@jimmy.harvard.edu>
LicenseArtistic-2.0
Version2.16.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("BAGS")

Man pages

AnnotationMFGO: List containing a collection of gene symbols with their...
BAGS-internal: Internal functions of the BAGS package.
BAGS-package: A Bayesian Approach for Geneset Selection (BAGS).
DataGeneSets: Function that filters the gene sets to work with the desired...
Gibbs2: Function obtains the MCMC chains for the parameters of...
Gibbs3: Function obtains the MCMC chains for the parameters of...
Gibbs4: Function obtains the MCMC chains for the parameters of...
Gibbs5: Function obtains the MCMC chains for the parameters of...
MCMCDataSet: Function that transform the dataset into the required format...
ReadGMT: Function that extracts the gene set definition from a .gmt...

Functions

AnnotationMFGO Man page
BAGS Man page
BAGS-package Man page
DataGeneSets Man page Source code
Gibbs2 Man page Source code
Gibbs3 Man page Source code
Gibbs4 Man page Source code
Gibbs5 Man page Source code
GrpMean Man page Source code
MCMCDataSet Man page Source code
ReadGMT Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/DataGeneSets.R
R/Gibbs2.R
R/Gibbs3.R
R/Gibbs4.R
R/Gibbs5.R
R/GrpMean.R
R/MCMCDataSet.R
R/ReadGMT.R
build
build/vignette.rds
data
data/AnnotationMFGO.rda
data/datalist
inst
inst/NEWS
inst/doc
inst/doc/BAGS.R
inst/doc/BAGS.Rnw
inst/doc/BAGS.pdf
man
man/AnnotationMFGO.Rd
man/BAGS-internal.Rd
man/BAGS-package.Rd
man/DataGeneSets.Rd
man/Gibbs2.Rd
man/Gibbs3.Rd
man/Gibbs4.Rd
man/Gibbs5.Rd
man/MCMCDataSet.Rd
man/ReadGMT.Rd
src
src/Auxiliares.h
src/BAGS.c
src/FuncionesFast-Final.h
src/OpMat.h
src/libMatInv.h
src/libmat.h
vignettes
vignettes/BAGS.Rnw
BAGS documentation built on May 20, 2017, 9:45 p.m.