Mercurial > repos > testtool > get_gr_set
comparison GRsetFromGEO/GRsetFromGEO.R @ 61:2382697aad09 draft
Uploaded
| author | testtool |
|---|---|
| date | Thu, 11 Jan 2018 12:48:29 -0500 |
| parents | d7cf4a35f827 |
| children |
comparison
equal
deleted
inserted
replaced
| 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 |