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Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ktz
•
0
Thank you for the quick reply. Rep 1 is lower than rep 2 in only one group (V_CD45), is this sufficient to affect the results even if I inc…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ATpoint
★
4.8k
One clearly sees spread in this gene but it seems largely explained by "rep", so some sort of batch effect that you are already accounting …
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ktz
•
0
Thank you both for your reply and your time! Sorry I didn't include this earlier but here it is (for the gene of interest):
structure(…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
James W. MacDonald
68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ATpoint
★
4.8k
> since there doesn't seem to be as much count variability,
No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
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