Hello,
I recently started working with RNA-Seq. I have a study with 8 samples divided in 2 groups (let say A and B). I applied the tophat-cufflinks pipeline. As a result, for each file, i have "genes.fpkm_tracking" which contains the fpkm for each read.
The question is : is it possible to estimate the differential gene expression between these 2 groups based only on these fpkm results.
(i read a post from Simon Anders where i think he was suggesting that this is impossible. but this post was old and anyway i can't find it again).
If not, what is the point of using Cufflinks?
thanks
I recently started working with RNA-Seq. I have a study with 8 samples divided in 2 groups (let say A and B). I applied the tophat-cufflinks pipeline. As a result, for each file, i have "genes.fpkm_tracking" which contains the fpkm for each read.
The question is : is it possible to estimate the differential gene expression between these 2 groups based only on these fpkm results.
(i read a post from Simon Anders where i think he was suggesting that this is impossible. but this post was old and anyway i can't find it again).
If not, what is the point of using Cufflinks?
thanks
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