Eric Banks b06f689d4b Merge branch 'master' of ssh://gsa2/humgen/gsa-scr1/gsa-engineering/git/unstable		2012-10-26 02:13:26 -04:00
..
bqsr	Committing a broken version of BaseRecalibration	2012-10-25 14:46:35 -04:00
compression/reducereads	Refactored the BaseCounts classes so that they are safer and allow for calculations on the most probable base (which is not necessarily the most common base).	2012-10-04 10:37:11 -04:00
genotyper	The default value for --contamination_fraction_to_filter is now 0.05 (5%) in both UG and HC. Users of GATK-lite get pushed down to 0% by default (since it's not enabled) or get a user error if they try to set it.	2012-10-26 01:04:51 -04:00
haplotypecaller	The default value for --contamination_fraction_to_filter is now 0.05 (5%) in both UG and HC. Users of GATK-lite get pushed down to 0% by default (since it's not enabled) or get a user error if they try to set it.	2012-10-26 01:04:51 -04:00