Hi Justin,
GSVA does not work correctly with LumiBatch objects. It does all the
calculations, but then returns the original input data object, not the pathway
collapsed version of the input data.
library(lumi)
library(GSVA)
library(GSVAdata)
library(lumiHumanAll.db)
data(example.lumi)
data(c2
Hi,
With the convenience that seqnamesStyles offers now, having to specify
the chromosome name notation manually would feel like a step back. In
terms of subsetting genomic ranges, I normally think of four major
groups of interest:
- Toplevel/standard: 1,..22,X,Y,MT
- Autosomes: 1,..,22
- A
