Mercurial > repos > testtool > get_gr_set

comparison GRsetFromGEO/GRsetFromGEO.R @ 61:2382697aad09 draft

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author testtool
date Thu, 11 Jan 2018 12:48:29 -0500
parents d7cf4a35f827
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60:dc0d9276a8f1 61:2382697aad09
1 require(minfi, quietly = TRUE) 1 require(minfi, quietly = TRUE)
2 require(IlluminaHumanMethylation450kanno.ilmn12.hg19, quietly = TRUE)
3
4 options('GEOquery.inmemory.gpl'=TRUE)
5 options('download.file.method.GEOquery' = 'libcurl')
2 6
3 options(warn = -1) 7 options(warn = -1)
4 8
5 args <- commandArgs(trailingOnly = TRUE) 9 args <- commandArgs(trailingOnly = TRUE)
6 input = args[1] 10 input = args[1]
7 output = args[2] 11 output = args[2]
8 12
9 GRset <- getGenomicRatioSetFromGEO(input) 13 GRset <- getGenomicRatioSetFromGEO(input)
10 14
11 save(GRset,file = output) 15 save(GRset, file = output)
12 16
13