gsea.files {Agi4x44PreProcess} | R Documentation |
Creates data and phenotype files for GSEA http://www.broad.mit.edu/gsea
gsea.files(eset, targets, annotation.package)
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 |
Pedro Lopez-Romero
## 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)