chapmanb/bcbio-nextgen — pull request #538 by mjafin (2014-08-05 07:16:09+00:00)
Title: RNA-seq variant calling preparations

As discussed previously, this will help push STAR aligned BAM files through the ``variant2`` pipeline for non-Gatk (and currently non-FreeBayes) variant callers, with the aim to eventually integrate parts of the ``variant2`` pipeline in ``RNA-seq``