Hi, does anyone know any potential causes for following issue? I am following this workflow, and I don't get my genes mapped to any of the output pathways. Example is from one. Another thread I have going on here as well.
Getting gene ID data from KEGG... Done with data retrieval!  "Downloading xml files for spo03013, 1/1 pathways.."  "Downloading png files for spo03013, 1/1 pathways.." No of the genes or compounds mapped to the pathway! Argument gene.idtype or cpd.idtype may be wrong. Working in directory /home/parham/pombe/working_dir/gage03 Writing image file spo03013.deseq2.png