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Fix a bug in GeneTrackToWig where +/- strands were not merged correctly. Add option to vary the chunk size of tools that process chromosomes in chunks.
author timpalpant
date Tue, 19 Jun 2012 22:09:23 -0400
parents 9d56b5b85740
children
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<tool id="WigShift" name="Mean shift" version="1.2.0">
  <description>a (Big)Wig file</description>
  <command interpreter="sh">galaxyToolRunner.sh wigmath.Shift -i $input -m $M $chr -o $output</command>
  <inputs>
    <param format="bigwig,wig" name="input" type="data" label="Shift the data in" />
    <param name="M" type="float" value="0" label="To have mean" />
    <param name="chr" type="boolean" checked="false" truevalue="--bychr" falsevalue="" label="Mean-shift chromosomes individually" />
  </inputs>
  <outputs>
    <data format="wig" name="output" metadata_source="input" />
  </outputs>
  <help>

This tool will shift all values in a Wig file by a scalar so that the output has the desired mean.

.. class:: infomark

**TIP:** If your dataset does not appear in the pulldown menu, it means that it is not in Wig or BigWig format. Use "edit attributes" to set the correct format if it was not detected correctly.

  </help>
</tool>