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1 <tool id="fimo2bed" name="fimo-to-bed">
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2 <description>convert FIMO output to BED</description>
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3 <command interpreter="python">fimo2bed.py $input $rc > $output</command>
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4 <inputs>
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5 <param name="input" format="txt" type="data" label="FIMO output file"/>
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6 <param name="rc" label="Check if the sequences are reverse complement" type="boolean" truevalue="rc" falsevalue="none" checked="False"/>
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7 </inputs>
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8 <outputs>
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9 <data format="bed" name="output" />
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10 </outputs>
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11 <help>
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12
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13 Only works if your original FIMO input fasta sequences have ids like::
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14
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15 mm9_chr15_99358448_99360448_-
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16
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17
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18 </help>
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19 </tool>
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