Mercurial > repos > testtool > geo_data
comparison GEO/getGEO.R @ 1:7230be4d8c66 draft
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author | testtool |
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date | Thu, 09 Feb 2017 12:26:33 -0500 |
parents | 4fb1765f3979 |
children |
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0:4fb1765f3979 | 1:7230be4d8c66 |
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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("download.file.method"="wget") | 7 options("download.file.method.GEOquery"="wget") |
8 options(warn = -1) | 8 options(warn = -1) |
9 | 9 |
10 args <- commandArgs(trailingOnly = TRUE) | 10 args <- commandArgs(trailingOnly = TRUE) |
11 GSMTable = args[1] | 11 GSMTable = args[1] |
12 MetaTable = args[2] | 12 MetaTable = args[2] |