Hello forum,
I have ran cuffdiff with two samples, treated vs untreated, and had
certain values as expressed in the output (isoform differential

When I ran it again, using a different treated sample, but SAME
UNTREATED SAMPLE, the values assigned to the untreated are different.

Why is this if values are calculated from a unique FPKM? This happend
for other jobs where I have ran the same untreated vs other treated

Thanks a lot,
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