OncogenicPathway

[avrajit]

How I will get genes name from oncogenicPathway? As per the maual I did this
pwa<- pathways(maf=maf, pathdb = 'smgbp', plotType = 'bar')
plotPathways(maf = maf, pathlist = pwa)

It is showing correct plot and informations but how to find out which genes name enriched under each pathway terms?
please help

[PoisonAlien]

Hi,

You could try the below

pwa <- pathways(maf=maf, pathdb = 'smgbp', plotType = 'bar')
attr(pwa, "genes")

Although it returns all the members of the pathway (not enriched).