Mark DePristo 2f334a57c2 ReadGroupProperties mk2 ... -- Includes paired end status (T/F) -- Includes count of reads used in calculation -- Includes simple read type (2x76 for example) -- Better handling of insert size, read length when there's no data, or the data isn't paired end by emitting NA not 0		2012-03-01 18:43:53 -05:00
..
alignment	Reinitialize random seed in the bwa bindings from the fixed seed stored in the	2011-07-22 13:41:53 -04:00
commandline	Added ability to specify arguments in files via -args/--arg_file	2011-10-24 15:58:34 -04:00
gatk	ReadGroupProperties mk2	2012-03-01 18:43:53 -05:00
jna	When using bam list mode in HSP deriving VCF name from bam list instead of requiring an additional parameter.	2011-12-16 18:09:25 -05:00
utils	DNA Sequence to BitSet and vice-versa conversion tools	2012-02-29 19:25:20 -05:00
BaseTest.java	ReadGroupProperties walker and associated infrastructure	2012-03-01 15:01:11 -05:00
MD5DB.java	Merged bug fix from Stable into Unstable	2011-10-13 18:02:06 -04:00
MedianUnitTest.java	ReadGroupProperties walker and associated infrastructure	2012-03-01 15:01:11 -05:00
StingTextReporter.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
WalkerTest.java	All MD5 mismatches for test are shown	2011-10-04 15:53:52 -07:00