library(devtools)
install_github("mwsill/IlluminaHumanMethylationEPICv2manifest")
install_github("mwsill/minfi")
library(minfi)
RGset <- read.metharray("./206891110005/206891110005_R02C01")
RGset
Mset <- preprocessIllumina(RGset)
Mset
# I have removed the 6397 duplicated probes, trying to select those under manifest_probe_match==TRUE when possible
any(duplicated(rownames(Mset)))
getBeta(Mset)