I run cuffdiff and I'm looking for differentially expressed isoforms in my tissue samples, but my isoform_exp.diff file contain genes that don't have any isoform reported (e.g. cxcl10, cxcl9, isg15) mixed with genes that have isoforms (e.g. oas2, mx1, ifi27). I thought that this file would report only genes that have isoforms. I wonder if I did something wrong or this is normal.
Thaks for your help.
Thaks for your help.
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