Question: GSA for comparison of geneset enricment analysis between multiple class
gravatar for Seymoo
20 months ago by
Seymoo0 wrote:

I have a gene expression data `AllExp` and a data.frame `info` with sample name of `AllExp` as row names and first column in it specifies groups that each sample belongs to.

I am trying to perform a a gene set enrichment analysis using GSA package. but I get following error

`Error in cut.default(sd, br, labels = F) : invalid number of intervals`

GS <- Sys.glob("E:/gmts/h.all.v6.1.symbols.gmt")
GS <-
GSA(AllExp, y=factor(info[,1]), genesets=GS$genesets, genenames = row.names(AllExp),method="maxmean", resp.type="Multiclass", minsize=10)

what is wrong with my code?

gsa • 244 views
ADD COMMENTlink modified 20 months ago • written 20 months ago by Seymoo0
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 261 users visited in the last hour