Mauricio Carneiro 17dbe9a95d A few cleanups in the LocusIteratorByState ... * No more N's in the extended event pileups * Only add to the pileup MQ0 counter if the read actually goes into the pileup		2012-01-31 09:40:51 -05:00
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R	queueJobReport now compresses PDF when running R 2.13+.	2012-01-10 17:32:30 -05:00
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	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	A few cleanups in the LocusIteratorByState	2012-01-31 09:40:51 -05:00
packages	Revved Picard to incorporate tfennell's AsyncSAMFileWriter.	2011-12-06 10:37:42 -05:00
perl	Update to the bindings for liftOverVCF.pl (to -V from -B)	2011-09-15 15:33:09 -04:00
scala	Turning off PHONE HOME option in the MDCP	2012-01-27 11:13:30 -05:00
testdata	Data Processing Pipeline Test	2011-12-12 00:24:51 -05:00