So I completed a standard workflow using top hat through cuffdiff in order to find differentially expressed genes. On cuffdiff, I clicked the option to have the sqlite file output compatible with Cummerbund; however, when I input all of the sqlite files into Cummerbund I received a fatal error. Do I need to modify the data further before inputting it into Cummerbund or something? I'm not quite sure what I'm missing.
Thanks for any help!