Parallel read alignment and variant calling using MapReduce
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README.md

Halvade

Halvade, a mapreduce implementation of the best practice DNA-seq/RNA-seq pipeline by Broad Institute. More information is available in the bioinformatics paper here.

To build Halvade run this command in the halvade folder:

> ant

To build the Halvade uploader tool run this command in the halvade_uploader_tool folder:

> ant

The documentation for Halvade is available on readthedocs.org.

There's two recipies available on the wiki page itself:

  • For the DNA-seq pipeline recipe go here.

  • For the RNA-seq pipeline recipe go here.

This software is available under the GPLv3 license.