README.md

package for MSA Infinium DNA Methylation array and minfi compatibility

Install from GitHub or from .tar.gz

library(devtools)
install_github('https://github.com/Illumina/IlluminaHumanMethylationMSAmanifest')
install.packages('IlluminaHumanMethylationMSAmanifest_0.1.0.tar.gz',repos=NULL,type='source')

Run

#read intensities
MSA_example = read.metharray.exp(base='MSA_IDATs')

#assign annotation
annotation(MSA_example)["array"] = "IlluminaHumanMethylationMSA"
annotation(MSA_example)["annotation"] = "20a1.hg38"

#read beta into matrix
betas_msa_example= as.data.frame(getBeta(MSA_example))