Mercurial > repos > xuebing > sharplabtool
comparison mytools/seq2meme.xml @ 7:f0dc65e7f6c0
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author | xuebing |
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date | Fri, 09 Mar 2012 19:59:07 -0500 |
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6:094f377db4e5 | 7:f0dc65e7f6c0 |
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1 <tool id="seq2meme" name="create-motif-file"> | |
2 <description>from fasta file</description> | |
3 <command interpreter="python">seq2meme.py $input $output $motifName $psuedocont $background </command> | |
4 <inputs> | |
5 <param name="input" type="data" format="txt" label="Sequence file" help="all sequences should be the same length"/> | |
6 <param name="motifName" size="20" type="text" value="motif1" label="Motif name (no space allowed)"/> | |
7 <param name="psuedocont" size="10" type="float" value="1.0" label="Psuedocount"/> | |
8 <param name="background" size="40" type="text" value="A,0.25,C,0.25,G,0.25,T,0.25" label="Background frequency"/> | |
9 </inputs> | |
10 <outputs> | |
11 <data format="txt" name="output" label="$motifName-meme"/> | |
12 </outputs> | |
13 <help> | |
14 | |
15 **Description** | |
16 | |
17 Generate a MEME motif format file from a set of sequences. Input could be raw sequences (one sequence per line) or fasta format (one identifier line and one sequence line). | |
18 | |
19 | |
20 </help> | |
21 </tool> |