/tools/emboss_5/emboss_pepstats.xml

 1<tool id="EMBOSS: pepstats71" name="pepstats" version="5.0.0">
 2  <description>Protein statistics</description>
 3  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
 4  <command>pepstats -sequence $input1 -outfile $out_file1 -termini $termini -auto</command>
 5  <inputs>
 6    <param format="data" name="input1" type="data">
 7      <label>Sequence</label>
 8    </param>
 9    <param name="termini" type="select">
10      <label>Include charge at N and C terminus</label>
11      <option value="yes">Yes</option>
12      <option value="no">No</option>
13    </param>
14  </inputs>
15  <outputs>
16    <data format="pepstats" name="out_file1" />
17  </outputs>
18  <tests>
19    <test>
20      <param name="input1" value="2.fasta"/>
21      <param name="termini" value="yes"/>
22      <output name="out_file1" file="emboss_pepstats_out.pepstats"/>
23    </test>
24  </tests>
25  <help>
26    You can view the original documentation here_.
27    
28    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/pepstats.html
29
30------
31
32**Citation**
33
34If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. &lt;http://www.ncbi.nlm.nih.gov/pubmed/17568012&gt;`_
35  </help>
36</tool>