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Comment: ashr vs apeglm for interaction data
by
Ali Barry
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30
Thanks, I'll trying playing a bit there. I have done some minor filtering already (requiring at least 5 counts in 10% of my samples, across…
Comment: ashr vs apeglm for interaction data
by
Michael Love
37k
I see why apeglm is conservative— the dispersion is very high within group.
An idea would be to use ashr but do some additional filtering …
Comment: How to figure out the FC value from Limma
by
ATpoint
★
1.2k
That’s an Excel problem, not a GEO/R problem or related to limma and Bioconductor.
Comment: ashr vs apeglm for interaction data
by
Ali Barry
▴
30
Hi Michael,
Plots attached. Many of the large fold changes with `ashr` are driven by one sample per group, but a few are maybe a bit more …
Comment: regression analysis for epic array methylation data using limma
by
nabiyogesh
▴
10
Thanks!
I have tried this; I am not sure after that how to find logeGFR associated probe? and also, how to filter significant probe?
…
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