Question: how to use q value to select differentially expressed genes
gravatar for ahmadvandra
8 weeks ago by
ahmadvandra0 wrote:

I have cuffdiff files including control and treated FPKMs, log2 fold change, p-value, q-value, test stat. and significance values . To select differentially expressed genes (up/down regulated genes) respect to fold change, I would like to know whether I should only select those genes with q- values<0.05 ( q-value cutoff )?

Thank you in advance


ADD COMMENTlink modified 8 weeks ago by Lluís R270 • written 8 weeks ago by ahmadvandra0
gravatar for Lluís R
8 weeks ago by
Lluís R270
European Union
Lluís R270 wrote:

The threshold for considering a fold change significant is arbitrary (but usually the q-value below 0.05 is used)

ADD COMMENTlink written 8 weeks ago by Lluís R270
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