view tools/emboss_5/emboss_cpgplot.xml @ 1:cdcb0ce84a1b

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<tool id="EMBOSS: cpgplot15" name="cpgplot" version="5.0.0">
  <description>Plot CpG rich areas</description>
  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
  <command interpreter="perl">emboss_cpgplot_wrapper.pl cpgplot -sequence $input1 -window $window -minlen $minlen -minpc $minpc -outfile $outfile -graph png -goutfile $goutfile -outfeat $outfeat -minoe $minoe -auto</command>
  <inputs>
    <param format="data" name="input1" type="data">
      <label>On query</label>
    </param>
    <param name="window" size="4" type="integer" value="100">
      <label>Window Size</label>
    </param>
    <param name="minlen" size="4" type="integer" value="200">
      <label>Minimum length</label>
    </param>
    <param name="minoe" size="4" type="float" value="0.6">
      <label>Minimum average observed to expected ratio</label>
    </param>
    <param name="minpc" size="4" type="float" value="50.0">
      <label>Minimum average percentage of G plus C</label>
    </param>
  </inputs>
  <outputs>
    <data format="cpgplot" name="outfile" />
    <data format="png" name="goutfile" />
    <data format="gff" name="outfeat" />
  </outputs>
  <code file="emboss_format_corrector.py" />
  <help>
    You can view the original documentation here_.
    
    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/cpgplot.html
  </help>
</tool>