gravatar for annamariabugaj

2 hours ago by

This is probably a stupid question but I really can not find an answer... I want to compare two DEGs sets from two different experimental settings in order to create a 'common DEGs set' and I found out that GSEA is a good way to do it but I need two types of files .gct and .cls

How do I create this files using my counts matrix that I was using for DESeq2? I found this but I am not sure what 'variable of interest' means and how exactly should I use this function (and similarly output.gct().

Or is it ok to just plot the Venn diagram for the two lists of DEGs? I am a bit lost after reading and searching....

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