GregoryFaust/samblaster — pull request #6 by chapmanb (2014-08-27 12:39:51+00:00)
Title: Support sequence match (=) and mismatch (X) in CIGAR strings.

Greg;
Thanks for all the work on samblaster. It's a great tool. This small patch enables use with aligners like SNAP that default to specific match/mismatch flags instead of the general 'M' match or mismatch parameter.