Gene Set Enrichment Analysis: Human Gage on T BioInfo

After uploading the input file, click on continue and START to build the pathway pipeline. Next, click on the HumanGAGE module where you need to set some of the important parameters as mentioned below.
Set HumanGAGE parameters:
Col Header : Choose Yes if there header present in the data.
Column with Gene ID: Here, you need to provide a column Number having Gene Symbol.
Column with Differential Expression Measure: Here, you need to provide a column Number having LogFC or fold change value.
Statistics Type: Choose Non-parametric if you provide input file from the DESeq2 or EdgeR or Wilcoxon Test results.
Gene Set: KEGG pathway if you want to get pathway, or you can choose GO terms if you want that.
Expression Change Direction: Choose Both direction
FDR threshold: Need to provide FDR value = 0.05 if you want only significant pathways. At this step, maybe you can choose much higher 1 or 2, so you will obtain all pathways and then you can select significant pathway from the table.

[nzubechichinedu]

Please, could you explain why there are NA's in your result.

[HaileG-]

Thanks a lot, but how can we proceed for crops such as Watermelon.