view chipsequtil/pieplot_macs/pieplots_macs.xml @ 22:63dace20719b draft

author alenail
date Wed, 13 Apr 2016 17:36:07 -0400
children dd504ac7bf6d
line wrap: on
line source

<tool id="pieplots_macs" name="Pieplots MACS" version="0.1">
    Peaks are assigned to the closest gene and then categorized according to their location at different genomic regions (promoter, intron, exon, or after the gene). Sites >10kb away from any gene are considered intergenic.
  <parallelism method="basic"></parallelism>
    <requirement type="package" version="1.2.1">matplotlib</requirement>
    <requirement type="package">pandas</requirement>
  <command interpreter="python"> genefile $genefilepeakfile $peakfile $MACSoutfile $out
    <param name="genefile" type="data" label="genefile file" help="" optional="false" />
    <param name="peakfile" type="data" label="peakfile xRef file" help="" optional="false" />
    <param name="MACS" checked="false" label="Set this value if you have MACS peaks" type="boolean" truevalue="--MACS" falsevalue="" help="" />
    <data name="out" format="pdf" hidden="false" />