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comparison tools/emboss_5/emboss_pepcoil.xml @ 0:9071e359b9a3

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author xuebing
date Fri, 09 Mar 2012 19:37:19 -0500
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1 <tool id="EMBOSS: pepcoil68" name="pepcoil" version="5.0.0">
2 <description>Predicts coiled coil regions</description>
3 <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
4 <command>pepcoil -sequence $input1 -outfile $out_file1 -window $window -coil $coil -frame $frame -other $other -auto</command>
5 <inputs>
6 <param format="data" name="input1" type="data">
7 <label>Sequence</label>
8 </param>
9 <param name="window" size="4" type="text" value="28">
10 <label>Window size</label>
11 </param>
12 <param name="coil" type="select">
13 <label>Report coiled coil regions</label>
14 <option value="yes">Yes</option>
15 <option value="no">No</option>
16 </param>
17 <param name="frame" type="select">
18 <label>Show coil frameshifts</label>
19 <option value="yes">Yes</option>
20 <option value="no">No</option>
21 </param>
22 <param name="other" type="select">
23 <label>Report non coiled coil regions</label>
24 <option value="yes">Yes</option>
25 <option value="no">No</option>
26 </param>
27 </inputs>
28 <outputs>
29 <data format="pepcoil" name="out_file1" />
30 </outputs>
31 <tests>
32 <test>
33 <param name="input1" value="2.fasta"/>
34 <param name="window" value="28"/>
35 <param name="coil" value="yes"/>
36 <param name="frame" value="yes"/>
37 <param name="other" value="yes"/>
38 <output name="out_file1" file="emboss_pepcoil_out.pepcoil"/>
39 </test>
40 </tests>
41 <help>
42 You can view the original documentation here_.
43
44 .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/pepcoil.html
45 </help>
46 </tool>