Question: CUFFDIFF giving empty CDS.DIFF files
gravatar for Rose
2.8 years ago by
Rose0 wrote:


I ran cuffdiff using c.elegans( WBcel235) gtf file on two groups of bam, ech having three replicates. The output produced by cuffdiff had empty cds.diff, cds.count_tracking and cds.fpkm_tracking. I have checked several sites regarding this issue and found that, the gtf file suppied should contain tss_id and p_id attributes. However, I re-ran cuffdiff with gtf file having both the attributes and again the outputs of cds files were empty. Other outputs seemed normal.

Can anyone help me with this?

rna-seq cuffdiff c.elegans • 655 views
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