gatk-3.8

History

Eric Banks e7c35a907f Fixes to BQSR for the --maximum_cycle_value argument. - It's now written into the recal report so that it can be used in the PrintReads step. - Note that we also now write the --deletions_default_quality value which accidentally wasn't being written before! - Added tests to make sure that the value of the --maximum_cycle_value is being used properly by PR with -BQSR. (This is my last non-branch commit; all future pushes will follow new GATK practices)	2013-02-05 17:38:03 -05:00
..
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	Fixes to BQSR for the --maximum_cycle_value argument.	2013-02-05 17:38:03 -05:00

Eric Banks e7c35a907f Fixes to BQSR for the --maximum_cycle_value argument.

- It's now written into the recal report so that it can be used in the PrintReads step.
  - Note that we also now write the --deletions_default_quality value which accidentally wasn't being written before!
  - Added tests to make sure that the value of the --maximum_cycle_value is being used properly by PR with -BQSR.
(This is my last non-branch commit; all future pushes will follow new GATK practices)

2013-02-05 17:38:03 -05:00

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

Fixes to BQSR for the --maximum_cycle_value argument.

2013-02-05 17:38:03 -05:00