/tools/emboss_5/emboss_pepstats.xml

https://bitbucket.org/cistrome/cistrome-harvard/ · XML · 36 lines · 32 code · 4 blank · 0 comment · 0 complexity · ac326ee69a907a47516578078d8eddba MD5 · raw file

  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. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/pepstats.html
  28. ------
  29. **Citation**
  30. If 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;`_
  31. </help>
  32. </tool>