# HG changeset patch # User nikos # Date 1406730766 14400 # Node ID 8eaf0cc6a54fa46dda8819a4c686f4f3f91b080e # Parent 3e0b7c446e7f1424f85061b46579fa291deee2e7 Uploaded diff -r 3e0b7c446e7f -r 8eaf0cc6a54f bigwig_to_wig.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/bigwig_to_wig.xml Wed Jul 30 10:32:46 2014 -0400 @@ -0,0 +1,576 @@ + + + + + + + + + + + + + galaxytools/bigwig_to_wig/bigwig_to_wig.xml at master · sidiropoulos/galaxytools · GitHub + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Skip to content +
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+ galaxytools / bigwig_to_wig / bigwig_to_wig.xml +
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+ sidiropoulos + + +
+ bigWig to Wig converter. +
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<tool id="bigwig_to_wig" name="BigWig to Wig" version="1.0.0">
  <description>converter</description>
  <command>/home/jens/bin/bigwig2wig_stdout -f $input -b $bin_size -l $mylab > $output 
  </command>
  <requirements>
    <requirement type="package">bigWigSummary</requirement>
    <requirement type="package">bigwig2wig</requirement>
    <requirement type="package">bigWigInfo</requirement>
  </requirements>
  <inputs>
    <param format="bigwig" name="input" type="data" label="BigWig file to convert">
    </param>
    <param name="bin_size" size="4" type="integer" value="500" label="Bin size" help="Must be an even integer > 100." />
    <param name="mylab" type="text" value="wiggle_file" label="Output file prefix" help="" />
  </inputs>
  <outputs>
    <data format="wig" name="output" label="${mylab}_density_bin${bin_size}.wig" />
  </outputs>
  <tests>
  </tests>
  <help>

This tool converts a **BigWig** file to fixed step **Wiggle** format. 
Resolution is controlled through the bin size (the higher the size, the lower the resolution).

The script this tool is based on is written by Jens Vilstrup Johansen and uses bigWigInfo_ and bigWigSummary_.

.. _bigWigInfo: https://github.com/adamlabadorf/ucsc_tools/blob/master/executables/bigWigInfo
.. _bigWigSummary: https://github.com/adamlabadorf/ucsc_tools/blob/master/executables/bigWigSummary

</help>
</tool>
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