Mercurial > repos > xuebing > sharplab_seq_motif
comparison mytools/seq2meme.xml @ 0:39217fa39ff2
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| author | xuebing |
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| date | Tue, 13 Mar 2012 23:34:52 -0400 |
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| -1:000000000000 | 0:39217fa39ff2 |
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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> |