They wouldn't be exactly consistent even if they used the same prior count,
since the calculations are not identical. edgeR normalizes the prior count
by each library's normalization factor so that log fold changes are always
squeezed toward zero, while voom, if I understand correctly, does not
nor
Good day,
The cpm function in edgeR uses a default offset of 0.25 and voom in limma uses
0.5 (and provides no user modification) to calculate the base 2 logarithm of
the counts per million. Might these be made consistent?
--
Dario Strbenac
University of Sydne
Thanks Herv�.
I will wait to do another version bump until all the servers are updated. Yes,
the package suggests knitr. in order to build vignettes correctly.
Thanks
- Juan Pablo
From: Herv� Pag�s
Sent: Tuesday, February 14, 2017 11:26 PM
To: Romero, Juan P
