Mercurial > repos > testtool > get_gr_set
comparison GRsetFromGEO/test-data/GRsetFromGEO.xml @ 48:20d50c006fca draft
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author | testtool |
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date | Thu, 10 Aug 2017 06:16:48 -0400 |
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1 <tool id="getGRset" name="GRsetFromGEO"> | |
2 <description>downloads data from GEO</description> | |
3 <requirements> | |
4 <requirement type="package" version="1.20.0">bioconductor-minfi</requirement> | |
5 </requirements> | |
6 <stdio> | |
7 <exit_code range="1:" /> | |
8 </stdio> | |
9 <command>Rscript $__tool_directory__/GRsetFromGEO.R "$input" "$output"</command> | |
10 <inputs> | |
11 <param format="text" name="input" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"/> | |
12 </inputs> | |
13 <outputs> | |
14 <data format="rdata" name="output" label="output.rdata" /> | |
15 </outputs> | |
16 <help> | |
17 **What it does** | |
18 This R-based tool downloads data from GEO using getGEO from the GEOquery package and then returns a GenomicRatioSet object | |
19 **Input** | |
20 The GSE ID of the dataset to be downloaded from GEO "e.g. 'GSE51547'" | |
21 **Output** | |
22 GenomicRatioSet object | |
23 </help> | |
24 </tool> |