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comparison GEO/getGEO.R @ 36:a266a7c268e9 draft

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author testtool
date Thu, 09 Feb 2017 10:13:04 -0500
parents 2b223a449cf6
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35:0262f5edecb9 36:a266a7c268e9
2 require("data.table", quietly = TRUE) 2 require("data.table", quietly = TRUE)
3 require("GEOquery", quietly = TRUE) 3 require("GEOquery", quietly = TRUE)
4 require("rtracklayer", quietly = TRUE) 4 require("rtracklayer", quietly = TRUE)
5 require("FDb.InfiniumMethylation.hg19", quietly = TRUE) 5 require("FDb.InfiniumMethylation.hg19", quietly = TRUE)
6 6
7 options(warn = -1,"download.file.method"="wget") 7 options("download.file.method"="wget")
8 8
9 args <- commandArgs(trailingOnly = TRUE) 9 args <- commandArgs(trailingOnly = TRUE)
10 GSMTable = args[1] 10 GSMTable = args[1]
11 MetaTable = args[2] 11 MetaTable = args[2]
12 IlmnTable = args[3] 12 IlmnTable = args[3]