David Roazen 8b29030467 Change default downsampling coverage target for the HaplotypeCaller to 250 ... -was previously set to 30, which seems far too aggressive given that with ActiveRegionWalkers, as with LocusWalkers, this limits the depth of any pileup returned by LIBS -250 is a more conservative default used by the UG -can adjust down/up later based on further experiments (GSA-699 will remain open) -verified with Ryan that all integration test differences are either innocent or represent an improvement GSA-699		2013-02-26 09:33:25 -05:00
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downsampling	-Added Per-Sample Contamination Removal to UnifiedGenotyper: Added an @Advanced option to the StandardCallerArgumentCollection, a file which should	2013-02-04 18:24:36 -05:00
walkers	Change default downsampling coverage target for the HaplotypeCaller to 250	2013-02-26 09:33:25 -05:00