gsea.files {Agi4x44PreProcess}R Documentation

Creates files for GSEA

Description

Creates data and phenotype files for GSEA http://www.broad.mit.edu/gsea

Usage

gsea.files(eset, targets, annotation.package)

Arguments

eset Expression Set object containing processed DATA
annotation.package character specifying the AGI annotation package: 'hgug4112a.db','mgug4122a.db'
targets data.frame with the targets structure

Author(s)

Pedro Lopez-Romero

Examples

## Not run: 
        data(dd)
        data(targets)
        library(hgug4112a.db)
        selSNR=which(dd$genes$ControlType==0)
        dd.aux=dd[selSNR,]
        index=which(duplicated(dd.aux$genes$ProbeName)==FALSE)
        dd.aux=dd.aux[index,]
        eset.test=build.eset(dd.aux,targets,makePLOT=FALSE,
                annotation.package="hgug4112a.db")

        gsea.files(eset.test,targets,annotation.package="hgug4112a.db")
## End(Not run)

[Package Agi4x44PreProcess version 1.2.0 Index]