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changeset 48:20d50c006fca draft

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Uploaded
author testtool
date Thu, 10 Aug 2017 06:16:48 -0400
parents b68434e4db0e
children bd3036f7baf4
files GRsetFromGEO/test-data/GRsetFromGEO.xml
diffstat 1 files changed, 24 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/GRsetFromGEO/test-data/GRsetFromGEO.xml	Thu Aug 10 06:16:48 2017 -0400
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+<tool id="getGRset" name="GRsetFromGEO">
+  <description>downloads data from GEO</description>
+  <requirements>
+<requirement type="package" version="1.20.0">bioconductor-minfi</requirement>
+  </requirements>
+  <stdio>
+  <exit_code range="1:" />
+  </stdio>
+  <command>Rscript $__tool_directory__/GRsetFromGEO.R "$input" "$output"</command>
+  <inputs>
+    <param format="text" name="input" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"/>
+  </inputs>
+  <outputs>
+    <data format="rdata" name="output" label="output.rdata" />
+  </outputs>
+  <help>
+    **What it does**
+    This R-based tool downloads data from GEO using getGEO from the GEOquery package and then returns a GenomicRatioSet object
+    **Input**
+    The GSE ID of the dataset to be downloaded from GEO "e.g. 'GSE51547'"
+    **Output**
+    GenomicRatioSet object
+  </help>
+</tool>