Dear all,
I have two samples, treated and untreated.
I ran cufflinks and had the following:
treated: 884532
untreat.: 130247
I then ran cuffdiff and look ath transcript diff. expression:
treated: 33
untreat.:2.9
significant:yes
Strangely for another transcripts I have:
Cufflinks: treat_:0
untreat_: 0
Cuffdiff: trat_4.4
untreat_0.2
significant: yes
How this can be possible?
I had similar results with other transcripts where one one of the two
had 0 cufflinks, and the other one very high but the cuffdiff come out
with NO TEST or OK but not significant
thanks,
ib