Mercurial > repos > testtool > get_gr_set

diff GRsetFromGEO/GRsetFromGEO.R @ 39:05f6acc80f47 draft

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Uploaded
author testtool
date Mon, 07 Aug 2017 09:53:59 -0400
parents 88d2c717105e
children fe7d4d8591c5
line wrap: on
line diff
--- a/GRsetFromGEO/GRsetFromGEO.R	Mon Jul 24 10:39:43 2017 -0400
+++ b/GRsetFromGEO/GRsetFromGEO.R	Mon Aug 07 09:53:59 2017 -0400
@@ -1,3 +1,6 @@
+require(minfi, quietly = TRUE)
+require(IlluminaHumanMethylation450kanno.ilmn12.hg19, quietly = TRUE)
+
 options(warn = -1)
 options('download.file.method.GEOquery' = 'wget')
 options('GEOquery.inmemory.gpl'=FALSE)
@@ -6,7 +9,7 @@
 args <- commandArgs(trailingOnly = TRUE)
 input = args[1] 
 output = args[2] 
-input <- 'GSE51547'
+
 GRset <- getGenomicRatioSetFromGEO(input)
 
 save(GRset,file = output)