Karthik Gururaj 018e9e2c5f 1. Cleaned up code ... 2. Split into DebugJNILoglessPairHMM and VectorLoglessPairHMM with base class JNILoglessPairHMM. DebugJNILoglessPairHMM can, in principle, invoke any other child class of JNILoglessPairHMM. 3. Added more profiling code for Java parts of LoglessPairHMM		2014-01-26 19:18:12 -08:00
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R	Something changed with the ggtitle syntax in the latest version of ggplot2.	2013-08-14 14:40:03 -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	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
doc	Fixed issues raised by Appistry QA (mostly small fixes, corrections & clarifications to GATKDocs)	2013-03-12 10:57:14 -04:00
java	1. Cleaned up code	2014-01-26 19:18:12 -08:00
keys	Public-key authorization scheme to restrict use of NO_ET	2012-03-06 00:09:43 -05:00
packages	ValidatingPileup was renamed to CheckPileup	2013-02-15 11:56:19 -05:00
perl	Fixing the liftover script to not require strict VCF header validation.	2013-11-07 09:02:17 -05:00
scala	Added HC trio calls and NA12878 KB snapshot to resource bundle.	2013-12-07 22:08:34 -05:00
testdata	Walker to create a fastq file from an interval list	2013-06-29 11:24:16 -04:00