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comparison GALAXY_FILES/tools/EMBER/Compare_Targets.xml @ 0:003f802d4c7d

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author mmaiensc
date Wed, 29 Feb 2012 15:03:33 -0500
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1 <tool id="compare_targets" name="Compare Targets" version="1.3">
2 <description>Compares the target genes from two EMBER runs</description>
3 <command interpreter="perl">Compare_Targets.pl -t1 $set1 -t2 $set2 -o $output -of $outtype -n $comptype</command>
4 <inputs>
5 <param format="txt" name="set1" type="data" label="Targets file 1"/>
6 <param format="txt" name="set2" type="data" label="Targets file 2"/>
7 <param name="outtype" type="select" label="Output type">
8 <option value="0" selected="true">All shared targets</option>
9 <option value="1">Targets unique to file 1</option>
10 <option value="2">Targets unique to file 2</option>
11 <option value="3">Union of targets from files 1 and 2</option>
12 </param>
13 <param name="comptype" type="select" label="Value to compare">
14 <option value="1" selected="true">Gene names</option>
15 <option value="0">Probe set IDs</option>
16 </param>
17 </inputs>
18 <outputs>
19 <data format="txt" name="output"/>
20 </outputs>
21
22 <tests>
23 <test>
24 <param name="set1" value="EMBER/patterns-1.targets"/>
25 <param name="set2" value="EMBER/patterns-1.targets"/>
26 <param name="outtype" value="0"/>
27 <param name="comptype" value="1"/>
28 <output name="output" file="EMBER/targets_1-1.txt"/>
29 </test>
30 </tests>
31
32
33 <help>
34
35 This tool compares the list of gene targets from different EMBER runs.
36
37 -----
38
39 Description of inputs:
40
41 *Targets files 1 and 2*: the .targets outputs of EMBER.
42
43 *Output type*: This tool compares the gene sets, and you can choose which comparison to print, either the intersection, difference, or union.
44
45 *Value to compare*: Choose gene name or probe set ID; some genes have multiple probe sets.
46
47 </help>
48
49 </tool>
50