Galaxy wrapper for HiFive
This wrapper allows use of the hifive package, a set of tools for handling HiC
and 5C data, on Galaxy. This includes managing data from mapped reads, either
in bam, mat, or raw formats. All stages use hdf5 dictionaries for fast access
and minimal memory and storage usage.
This toolset includes methods for normalizing data from either HiC or 5C
experiments at the fragment-end, or fragment level resolution, respectively.
Once normalized, data can be used for plotting, binning, or other statistical
tests within the package very quickly.
Original documentation can be found here.
Galaxy should be able to automatically install the dependencies, i.e. the
h5py and hifive tool depedency packages.
For those not using Galaxy's automated installation from the Tool Shed, put
the XML and Python files in the tools/hifive/ folder and add the
XML files to your tool_conf.xml as normal. For example, use:
<section name="HiFive" id="hifive_tools">
<tool file="hifive.xml" />
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