Mercurial > repos > testtool > get_gr_set

comparison GRsetFromGEO/GRsetFromGEO.R @ 55:e23909ae6676 draft

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author testtool
date Thu, 10 Aug 2017 06:26:46 -0400
parents 5752f23e451f
children d7cf4a35f827
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54:5752f23e451f 55:e23909ae6676
1 require(minfi, quietly = TRUE)
2
3 options(warn = -1) 1 options(warn = -1)
4 options('download.file.method.GEOquery' = 'wget') 2 options('download.file.method.GEOquery' = 'wget')
5 options('GEOquery.inmemory.gpl'=FALSE) 3 options('GEOquery.inmemory.gpl'=FALSE)
6 4
7 5
8 args <- commandArgs(trailingOnly = TRUE) 6 args <- commandArgs(trailingOnly = TRUE)
9 input = args[1] 7 input = args[1]
10 output = args[2] 8 output = args[2]
11 9
12 GRset <- getGenomicRatioSetFromGEO(input) 10 GRset <- minfi::getGenomicRatioSetFromGEO(input)
13 11
14 save(GRset,file = output) 12 save(GRset,file = output)
15 13
16 14