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1 <tool id="seq2meme" name="create-motif-file">
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2 <description>from fasta file</description>
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3 <command interpreter="python">seq2meme.py $input $output $motifName $psuedocont $background </command>
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4 <inputs>
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5 <param name="input" type="data" format="txt" label="Sequence file" help="all sequences should be the same length"/>
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6 <param name="motifName" size="20" type="text" value="motif1" label="Motif name (no space allowed)"/>
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7 <param name="psuedocont" size="10" type="float" value="1.0" label="Psuedocount"/>
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8 <param name="background" size="40" type="text" value="A,0.25,C,0.25,G,0.25,T,0.25" label="Background frequency"/>
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9 </inputs>
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10 <outputs>
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11 <data format="txt" name="output" label="$motifName-meme"/>
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12 </outputs>
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13 <help>
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14
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15 **Description**
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16
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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).
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18
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19
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20 </help>
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21 </tool>
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