Raymond Yuan SHANG

Hi, Prof.Yu, I do have the same issue when using enricher to do the over presentation analysis. The current enricher/DOSE::enricher_internal() used modified hypergeometric test with genes in the (TERM2GENE) as...

Hi,@huerqiang, Thanks for the reply. I checked the R functions for enricher(). enricher() --> enricher_internal --> DOSE:::enricher_internal(). And, in DOSE:enricher_internal.R, lines 61-68: ``` if(!is.null(universe)) { if (is.character(universe)) { extID

I think recalculating N in DOSE will solve the problem. N wrote: > Would adding all the genes in the universe as a term in the term2gene > database fix...

Hi, I have the same problem. After adding "--force 1", I got some errors like this: cp "test2014/COCO_test2014_000000266619.jpg" vis/imgs/img6669.jpg cp: cannot stat 'test2014/COCO_test2014_000000266619.jpg': No such file or directory After downloading...