I'm trying to find metabolic pathways of deferentially expressed genes in my Sorghum RNAseq experiment. I tried to do it with "MapMan" but the software database doesn't have a mapping file for sorghum included yet. Now I'm trying to do it with "Gramene SorghumCyc pathways" database. But looking at each pathway and each gene manually is very time consuming. Could you please let me know if you have any suggestions?
Hello, maybe you can use "Mercator pipeline for automated sequence annotation" on the MapMan website. This tool is made to create annotation file and "can directly be used as a mapping file for the high-throughput data visualization and meta-analysis software MapMan"
http://mapman.gabipd.org/web/guest/app/mercator
Depending on the number of sequence you have, it can take a long time (overnight)
Good luck
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