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comparison tools/ilmn_pacbio/abyss.xml @ 0:9071e359b9a3

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author xuebing
date Fri, 09 Mar 2012 19:37:19 -0500
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1 <tool id="abyss" name="ABySS" version="1.0.0">
2 <description>Short-read de Bruijn assembly</description>
3 <command interpreter="python">
4 quake_wrapper.py -k $k -r $input1 -p 8 > $output1
5 </command>
6 <inputs>
7 <param name="input1" format="fastq" type="data" label="Select FASTQ file to correct" />
8 <param name="k" type="integer" value="16" label="Size of k-mers to correct" />
9 </inputs>
10 <outputs>
11 <data format="fastq" name="output1" label="Error-corrected reads from ${on_string}" />
12 </outputs>
13 <help>
14
15 **What it does**
16
17 TBD. Calls ABySS assembler
18
19 **Parameter list**
20
21 k
22
23 **Output**
24
25 Corrected reads
26
27 </help>
28 </tool>
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