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43 lines
1.9 KiB
XML
43 lines
1.9 KiB
XML
<tool id="EMBOSS: pepwheel72" name="pepwheel">
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<description>Shows protein sequences as helices</description>
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<command interpreter="perl">emboss_single_outputfile_wrapper.pl pepwheel -sequence $input1 -graph png -goutfile $out_file1 -squares $squares -diamonds $diamonds -octags $octags -amphipathic
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$amphipathic -steps $steps -turns $turns -wheel $wheel -auto</command>
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<inputs>
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<param format="data" name="input1" type="data">
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<label>Sequence</label>
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</param>
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<param name="steps" size="10" type="text" value="18">
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<label>Steps, the number of residues plotted per turn is this value divided by the 'turns' value</label>
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</param>
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<param name="turns" size="10" type="text" value="5">
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<label>Turns, the number of residues plotted per turn is the 'steps' value divided by this value</label>
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</param>
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<param name="squares" size="10" type="text" value="ILVM">
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<label>Residues to mark with squares</label>
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</param>
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<param name="diamonds" size="10" type="text" value="DENQST">
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<label>Residues to mark with diamonds</label>
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</param>
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<param name="octags" size="10" type="text" value="HKR">
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<label>Residues to mark with octagons</label>
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</param>
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<param name="wheel" type="select">
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<label>Plot the wheel</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="amphipathic" type="select">
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<label>If this is true then the residues ACFGILMVWY are marked as squares and all other residues are unmarked. This overrides any other markup that you may have specified</label>
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<option value="no">No</option>
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<option value="yes">Yes</option>
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</param>
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</inputs>
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<outputs>
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<data format="png" name="out_file1" />
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</outputs>
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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/4.0/emboss/apps/pepwheel.html
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</help>
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</tool> |