readmanifest {ENmix}R Documentation

Parsing Illumina methylation arrays manifest file.

Description

Parsing Illumina methylation arrays manifest file.

Usage

readmanifest(file)

Arguments

file

Illumina methylation array manifest file, downloaded from Illuminal website

Value

An object of dataframe caintaining probe annotation information

Author(s)

Zongli Xu

Examples



#for MethylationEPIC v1.0 B5
system("wget http://webdata.illumina.com.s3-website-us-east-1.amazonaws.com/downloads
/productfiles/methylationEPIC/infinium-methylationepic-v-1-0-b5-manifest-file-csv.zip")
system("unzip infinium-methylationepic-v-1-0-b5-manifest-file-csv.zip")
mf="infinium-methylationepic-v-1-0-b5-manifest-file.csv"
manifest=readmanifest(mf)

#for MethylationEPIC v1.0 B4
system("wget ftp://webdata2:webdata2@ussd-ftp.illumina.com/downloads/productfiles
/methylationEPIC/infinium-methylationepic-v-1-0-b4-manifest-file-csv.zip")
system("unzip infinium-methylationepic-v-1-0-b4-manifest-file-csv.zip")
mf="MethylationEPIC_v-1-0_B4.csv"
manifest=readmanifest(mf)

#for HumanMethylation450
system("wget ftp://webdata2:webdata2@ussd-ftp.illumina.com/downloads/ProductFiles
/HumanMethylation450/HumanMethylation450_15017482_v1-2.csv")
mf="HumanMethylation450_15017482_v1-2.csv"
manifest=readmanifest(mf)



[Package ENmix version 1.30.02 Index]