Mauricio Carneiro 88a02fa2cb Fixing but for reads with cigars like 9S54H ... When hard-clipping predict when the read is going to be fully hard clipped to the point where only soft/hard-clips are left in the read and preemptively eliminate the read before the SAMRecord mathematics on malformed cigars kills the GATK.		2012-07-02 16:22:00 -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	Fixing but for reads with cigars like 9S54H	2012-07-02 16:22:00 -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	Pass the original GATK unsafe parameter to the VcfGatherFunction	2012-07-02 16:03:11 -04:00
testdata	Moved most testdata from public to private	2012-06-21 15:17:19 -04:00