Mercurial > repos > yufei-luo > s_mart
comparison SMART/galaxy/getWigDistance.xml @ 18:94ab73e8a190
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author | m-zytnicki |
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date | Mon, 29 Apr 2013 03:20:15 -0400 |
parents | 440ceca58672 |
children | 0ab839023fe4 |
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17:b0e8584489e6 | 18:94ab73e8a190 |
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1 <tool id="getWigDistance" name="get wig distance"> | 1 <tool id="getWigDistance" name="get WIG distance"> |
2 <description>Compute the average data around some genomic coordinates using WIG files (thus covering a large proportion of the genome).</description> | 2 <description>Compute the average data around some genomic coordinates using WIG files (thus covering a large proportion of the genome).</description> |
3 <requirements> | |
4 <requirement type="set_environment">PYTHONPATH</requirement> | |
5 </requirements> | |
3 <command interpreter="python"> | 6 <command interpreter="python"> |
4 ../Java/Python/getWigDistance.py -i $inputGff3File -f gff3 -w $inputWigFile -a 0.0 -d $distance $strand -o $outputFile | 7 ../Java/Python/getWigDistance.py -i $inputGff3File -f gff3 -w $inputWigFile -a 0.0 -d $distance $strand -o $outputFile |
5 </command> | 8 </command> |
6 | 9 |
7 <inputs> | 10 <inputs> |
10 <param name="distance" type="integer" value="1000" label="Distance around positions."/> | 13 <param name="distance" type="integer" value="1000" label="Distance around positions."/> |
11 <param name="strand" type="boolean" truevalue="-s" falsevalue="" checked="false" label="Consider both strands separately."/> | 14 <param name="strand" type="boolean" truevalue="-s" falsevalue="" checked="false" label="Consider both strands separately."/> |
12 </inputs> | 15 </inputs> |
13 | 16 |
14 <outputs> | 17 <outputs> |
15 <data name="outputFile" format="png" label="[getWigDistance] PNG output File"/> | 18 <data name="outputFile" format="png" label="[get WIG distance] PNG output file"/> |
16 </outputs> | 19 </outputs> |
17 | 20 |
18 <help> | 21 <help> |
19 Plots the average data contained in a set of WIG files (please consult http://genome.ucsc.edu/goldenPath/help/wiggle.html to know more about this format) around the first nucleotides of a annotation file. | 22 Plots the average data contained in a set of WIG files (please consult http://genome.ucsc.edu/goldenPath/help/wiggle.html to know more about this format) around the first nucleotides of a annotation file. |
20 | 23 |