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Comment: Highly DE genes but small count difference within conditions
by
Michael Love
42k
These are both hard to call for me, looking at the plots. It ends up depending on the information sharing from the rest of the genes, and t…
Comment: heatmap with batch effect
by
tothuhien
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0
ok I got it, thank you very much. That was very helpful.
Comment: Highly DE genes but small count difference within conditions
by
bioshot.com
•
0
The lfc of Eif3j1 is around -2.5, i tried with and without shrinkage but didn't change for those genes. What about Slfn5?
Comment: Highly DE genes but small count difference within conditions
by
Michael Love
42k
Eif3j1 is a hard case, although there is separation here, there is also substantial spread. The posterior LFC is probably not that large? `…
Comment: heatmap with batch effect
by
James W. MacDonald
67k
When you use `removeBatchEffect` it is simply computing the mean expression for each group and subtracting that out. If you have variabilit…
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