Hello Irene,
This issue is similar to the original. The input GTF for this run
(dataset #15) has tss_id populated, but not p_id. The p_id attribute is
required for the CDS calculations.
http://cufflinks.cbcb.umd.edu/manual.html#cuffdiff_input
(quote) Cuffdiff Input:
Attribute
Hi,
I ran cuffdiff using Refseq genes as GTF and two groups of BAM. Group
one has two replicates (treated) and group two only one replicate
(untreated).
When looking at the outputs the following are empty (1 line):
TSS group FPKM tracking
TSS groups differential expression testing
CDS FPKM
Hello Irene,
Yes, this is can be the result if your source GTF data did not have the
full compliment of attributes needed by Cuffdiff to perform these
calculations.
The primary tool documentation covers this information here:
http://cufflinks.cbcb.umd.edu/manual.html#fpkm_track
The
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