comparison cut_dnaclust.xml @ 0:84be1fe7e34a draft

Uploaded

0:84be1fe7e34a

<?xml version="1.0"?>
<tool id="cutClust_1" name="cutClust">
  <description>Remove clusters below a certain depth</description>
  <command >cut -f $depth- $inputFile | sed '/^$/d'   | sort | uniq >  $outputfile</command>
  <inputs>
    <param format="tabular" name="inputFile" type="data" label="Columnar Input File" help="tabular file of DNAclust clusters" />
 <param name="depth" size="10" type="text" value="50" label="Minimum depth for cutoff" />

  </inputs>
  <outputs>
     <data format="tabular"  name="outputfile" />
  </outputs>
<help>
.. class:: infomark

**TIP**

::

This tool simply cuts off columns from the left
e.g. set to 2 to remove singletons, 50 to remove clusters with less than 50 reads
</help>


</tool>