“SigGene_pairwise_Result_7”, “SigGene_pairwise_Result_6”, etc. There is NO information about what pairs are being compared within each file. There are no legend files or anything. How do I understand which file compares which group of samples?
Which Galaxy server are you working at? I’m not familiar with that interface.
If you are not working in Galaxy (what this forum is focused on), you could try the tool as wrapped in this app. All of the analysis runtime details will be covered, you can easily create workflows for reuse, download data – all in a GUI application or through the API.