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I preformed Phase 1 with GATK 2.5-2. Has 2.6-5 changed enough to warrant redoing with the GATK 2.6-5? In particular, I would like to use the new plotting features of AnalyzeCovariates. Do I need to redo this in order to use the latest?
If I can use GATK 2.5-2 for Phase 1, can I move on with GATK 2.6-5?