view glang-galaxy-conf/gembassy/ggcskew_template.xml @ 2:8947fca5f715 draft default tip

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<tool id="EMBOSS: ggcskew" name="ggcskew" version="1.0.2">
  <description>Calculates and plots the GC skew of the input sequence</description>
  <command interpreter="perl">gembassy_calcandplot_wrapper.pl ggcskew -sequence $input1 -window $window -slide $slide -cumulative $cumulative -at $at -purine $purine -keto $keto -auto $out_file1 $out_file2</command>
  <inputs>
    <param format="data" name="input1" type="data">
      <label>Sequences</label>
    </param>
    <param name="window" size="4" type="integer" value="10000">
      <label>Window size to observe</label>
    </param>
    <param name="slide" size="4" type="integer" value="10000">
      <label>Window slide size</label>
    </param>
    <param name="cumulative" type="select" value="yes">
      <label>Include to calculate cumulative skew</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
    <param name="at" type="select">
      <label>Include for observing AT skew instead of GC skew</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
    <param name="purine" type="select">
      <label>Include for observing purine (AG/TC) skew</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
    <param name="keto" type="select">
      <label>Include for observing keto (TG/AC) skew</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
  </inputs>
  <outputs>
    <data format="csv" name="out_file1" label="${tool.name} data for ${input1.name}"/>
    <data format="png" name="out_file2" label="${tool.name} plot for ${input1.name}"/>
  </outputs>
</tool>