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comparison SMART/galaxy/mergeSlidingWindowsClusters.xml @ 31:0ab839023fe4

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author m-zytnicki
date Tue, 30 Apr 2013 14:33:21 -0400
parents 94ab73e8a190
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30:5677346472b5 31:0ab839023fe4
1 <tool id="mergeSlidingWindowsClusters" name="merge sliding windows clusters"> 1 <tool id="mergeSlidingWindowsClusters" name="merge sliding windows clusters">
2 <description>Merges two files containing the results of a sliding windows clustering.</description> 2 <description>Merges two files containing the results of a sliding windows clustering.</description>
3 <requirements>
4 <requirement type="set_environment">PYTHONPATH</requirement>
5 </requirements>
6 <command interpreter="python"> 3 <command interpreter="python">
7 ../Java/Python/mergeSlidingWindowsClusters.py -i $formatType.inputFileName1 4 ../Java/Python/mergeSlidingWindowsClusters.py -i $formatType.inputFileName1
8 #if $formatType.FormatInputFileName1 == 'bed': 5 #if $formatType.FormatInputFileName1 == 'bed':
9 -f bed 6 -f bed
10 #elif $formatType.FormatInputFileName1 == 'gff': 7 #elif $formatType.FormatInputFileName1 == 'gff':
100 </inputs> 97 </inputs>
101 98
102 <outputs> 99 <outputs>
103 <data name="outputFileGff" format="gff3"/> 100 <data name="outputFileGff" format="gff3"/>
104 </outputs> 101 </outputs>
105
106 <help>
107 Sliding windows are also useful to compare two (or more!) sets of data. This can be very valuable when you want to compare differential expression in two different conditions. When you have two different sliding windows sets, this function merges them into one, where each window contains the two pieces of information. You may want to plot the data afterwards using the *plot transcript list* function.
108 </help>
109 102
110 </tool> 103 </tool>