Mark DePristo b08d63a6b8 Documentation and code cleanup for ClipReads, CallableLoci, and VariantsToTable ... -- Swapped -o [summary] and -ob [bam] for more standard -o [bam] and -os [summary] arguments. -- @Advanced arguments		2011-08-19 15:06:37 -04:00
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R	GATKReport v0.2:	2011-08-03 00:24:47 -04:00
c	Reinitialize random seed in the bwa bindings from the fixed seed stored in the	2011-07-22 13:41:53 -04:00
chainFiles	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
doc	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
java	Documentation and code cleanup for ClipReads, CallableLoci, and VariantsToTable	2011-08-19 15:06:37 -04:00
packages	Added edu.mit.broad.picard to Queue packaged jar.	2011-07-23 14:40:29 -04:00
perl	Moving these supported perl scripts to public	2011-07-01 17:26:25 -04:00
scala	Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable	2011-08-10 16:57:34 -04:00
testdata	GZIP VCF for testing	2011-08-19 09:05:39 -04:00