search

BaderLab / EnrichmentMapApp

The EnrichmentMap Cytoscape App allows you to visualize the results of gene-set enrichment as a network.
http://apps.cytoscape.org/apps/enrichmentmap
GNU Lesser General Public License v2.1
32 stars 12 forks source link

EM3.2 Table panel : ranking issue #366

Closed veroniquevoisin closed 5 years ago

veroniquevoisin commented 5 years ago

creating a enrichment map by manually populating the files : GSEA, files used in protocol it looks like the ranking is in absolute value and does not take the signs into account -9 8 -7... etc

screen shot 2019-03-01 at 4 36 30 pm

screen shot 2019-03-01 at 4 35 58 pm

mikekucera commented 5 years ago

I talked to Veronique about this. I wish I had left a comment on here at the time because my memory is a bit vague. But I think the cause was that its sorting based on the order of the genes in the rank file, which usually works fine. For some reason her rank file was out of order. We agreed that it would be fixed in the rank file as this would be a major change in EnrichmentMap. If that is not satisfactory please reopen this issue.