Mark DePristo 734bb5366b Special case the situation where we have ploidy == 0 (no GT values) to implicitly assume we have diploid samples ... -- numLikelihoods no longer allows even ploidy == 0 in requires -- VCFCompoundHeaderLine handles the case where ploidy == 0 => implicit ploidy == 2		2012-06-28 10:06:07 -04:00
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R	Bugfix for R 2.15 not including reshape	2012-06-14 16:42:29 -04:00
c	At chartl's request, add the bwa aln -N and bwa aln -m parameters to the bindings.	2012-01-17 14:47:53 -05:00
chainFiles	…
doc	…
java	Special case the situation where we have ploidy == 0 (no GT values) to implicitly assume we have diploid samples	2012-06-28 10:06:07 -04:00
keys	Public-key authorization scheme to restrict use of NO_ET	2012-03-06 00:09:43 -05:00
packages	Temporary fake release directories for Bamboo testing purposes	2012-05-31 16:04:07 -04:00
perl	Update to the bindings for liftOverVCF.pl (to -V from -B)	2011-09-15 15:33:09 -04:00
scala	Refactored parsing of Rod/IntervalBinding. Queue S/G now uses all interval arguments passed to CommandLineGATK QFunctions including support for BED/tribble types, XL, ISR, and padding.	2012-06-27 01:15:22 -04:00
testdata	Moved most testdata from public to private	2012-06-21 15:17:19 -04:00