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48 lines
1.9 KiB
XML
48 lines
1.9 KiB
XML
<tool id="EMBOSS: antigenic1" name="antigenic" version="5.0.0">
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<description>Predicts potentially antigenic regions of a protein sequence, using the method of Kolaskar and Tongaonkar.</description>
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<command>antigenic -sequence $input1 -outfile $out_file1 -minlen $minlen -rformat2 $out_format1 -auto</command>
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<inputs>
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<param format="data" name="input1" type="data">
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<label>On query</label>
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</param>
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<param name="minlen" size="4" type="text" value="6">
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<label>Minimum Length of region</label>
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</param>
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<param name="out_format1" type="select">
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<label>Output format</label>
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<option value="gff">GFF</option>
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<option value="pir">PIR</option>
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<option value="swiss">SwissProt</option>
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<option value="dbmotif">DbMotif</option>
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<option value="diffseq">diffseq</option>
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<option value="excel">Excel (TAB Delimited)</option>
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<option value="feattable">FeatTable</option>
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<option value="motif">Motif</option>
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<option value="nametable">NameTable</option>
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<option value="regions">Regions</option>
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<option value="seqtable">SeqTable</option>
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<option value="simple">SRS simple</option>
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<option value="srs">SRS</option>
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<option value="table">Table</option>
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<option value="tagseq">Tagseq</option>
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<option value="antigenic">Antigenic Output File</option>
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</param>
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</inputs>
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<outputs>
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<data format="antigenic" name="out_file1" />
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</outputs>
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<tests>
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<test>
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<param name="input1" value="2.fasta"/>
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<param name="minlen" value="6"/>
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<param name="out_format1" value="excel"/>
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<output name="out_file1" file="emboss_antigenic_out.tabular"/>
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</test>
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</tests>
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<code file="emboss_format_corrector.py" />
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<help>
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You can view the original documentation here_.
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.. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/antigenic.html
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</help>
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</tool> |