[2] | 1 | <tool id="EMBOSS: tcode97" name="tcode" version="5.0.0">
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| 2 | <description>Fickett TESTCODE statistic to identify protein-coding DNA</description>
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| 3 | <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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| 4 | <command>tcode -sequence $input1 -outfile $out_file1 -window "$window" -step "$step" -rformat $out_format1 -auto</command>
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| 5 | <inputs>
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| 6 | <param format="data" name="input1" type="data">
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| 7 | <label>Sequence</label>
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| 8 | </param>
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| 9 | <param name="window" size="5" type="text" value="200">
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| 10 | <label>Window size</label>
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| 11 | </param>
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| 12 | <param name="step" size="5" type="text" value="3">
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| 13 | <label>Step size</label>
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| 14 | </param>
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| 15 | <param name="out_format1" type="select">
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| 16 | <label>Output Report File Format</label>
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| 17 | <option value="table">Table</option>
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| 18 | <option value="embl">EMBL</option>
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| 19 | <option value="genbank">GENBANK</option>
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| 20 | <option value="gff">GFF</option>
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| 21 | <option value="pir">PIR</option>
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| 22 | <option value="swiss">SwissProt</option>
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| 23 | <option value="dbmotif">DbMotif</option>
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| 24 | <option value="diffseq">Diffseq</option>
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| 25 | <option value="excel">Excel (tab delimited)</option>
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| 26 | <option value="feattable">FeatTable</option>
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| 27 | <option value="motif">Motif</option>
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| 28 | <option value="regions">Regions</option>
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| 29 | <option value="seqtable">SeqTable</option>
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| 30 | <option value="simple">SRS Simple</option>
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| 31 | <option value="srs">SRS</option>
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| 32 | <option value="tagseq">TagSeq</option>
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| 33 | </param>
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| 34 | </inputs>
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| 35 | <outputs>
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| 36 | <data format="table" name="out_file1" />
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| 37 | </outputs>
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| 38 | <code file="emboss_format_corrector.py" />
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| 39 | <help> |
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| 40 | You can view the original documentation here_. |
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| 41 | |
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| 42 | .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/tcode.html |
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| 43 | </help> |
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| 44 | </tool> |
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