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mikekucera avatar mikekucera commented on September 13, 2024

What is the format of the header row of your files? It looks like EM is assuming that GSEA results have 11 columns.

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risserlin avatar risserlin commented on September 13, 2024

here is the header row for fGSEA results that I have created -
name description GS details SIZE ES NES pval padj FWER Rank at Max leading edge genes
(truthfully I am not sure which file the above is referring to but I have a generic method for creating fGSEA results and they all look like this)

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mikekucera avatar mikekucera commented on September 13, 2024

Hi Ruth,
What is the actual problem? I just tried creating a network from a GSEA data set and I swapped the positive and negative files and it appears to still have worked.

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