Hi Guannan,

I've got a set of enriched GO terms that I'd like to cluster which I got through GSEA. I've been trying to adjust/supplement the formatting I get from GSEA to match that of one of the tools you accept as input, but because of the different nature of the test, I lack the following (from your enrichment result formatting script):

goea_go_adj_pvalue
goea_go_cats_test
goea_go_total_test

If I understand the GOMCL paper correctly, you're clustering based on the OC or JC of the gene sets only, right? In which case none of the values I'm missing are strictly necessary for the clustering itself. So I'm wondering, is there a relatively easy way to adapt your code to make it suitable for clustering based on input that's e.g. just a pre-filtered list of GO terms + the corresponding genes?

Thanks!
Tessa