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Dear all,

I was browsing through some of the less used functions in the GATK documentation, hence the following question: Does the LeftAlignIndels function do something additional that is not happening with IndelRealigner? In other words, do you recommend to run LeftAlignIndels on top of the indel realignment?

Best regards, Sophia

There are 5 comments on this article. To see them or add your own, view this post on the forum