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view galaxy-conf/IntervalToBed.xml @ 15:3e477c7e0e73 draft

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Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
author timpalpant
date Sat, 09 Jun 2012 16:03:59 -0400
parents
children b2a69d34385a
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<tool id="IntervalToBed" name="SAM/BAM/GFF/BedGraph/BigBed to Bed" version="1.0.0">
  <description>converter</description>
  <command interpreter="sh">galaxyToolRunner.sh converters.IntervalToBed -i $input -o $output</command>
  <inputs>
      <param name="input" type="data" format="sam,bam,gff,bigbed,bedgraph" label="Input" />
  </inputs>
  <outputs>
      <data name="output" format="bed" metadata_source="input" />
  </outputs>
<help>

This tool will convert any file in SAM, BAM, GFF, BedGraph, or BigBed format to Bed format.

</help>
</tool>