Hi Jiwen,
As far as I know, this is possible. The CuffDiff log2 value is defined
here: http://cufflinks.cbcb.umd.edu/manual.html#gene_exp_diff
7 FPKMx 8.01089 FPKM of the gene in sample x
8 FPKMy 8.551545 FPKM of the gene in sample y
9 log2(FPKMy/FPKMx)
I think the sign is to show if it is x-fold more than the first
condition (+) or x-fold less than the first condition (-). A
regular fold would give you values from 1-whatever if sample 2 is
more than sample 1, and a fraction (0-1) if sample 1 is expressed
more
Hi Noa,
This is it exactly - thanks for adding in the interpretation!
Jen
On 5/10/12 11:54 AM, Noa Sher wrote:
I think the sign is to show if it is x-fold more than the first
condition (+) or x-fold less than the first condition (-). A regular
fold would give you values from 1-whatever if
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