STAMPY and RealignerTargetCreator

jpofmarsjpofmars Member Posts: 5
edited January 2013 in Ask the GATK team

Hello,

before I only used BWA and as you described in the best pratice I performed the realign step.
Now I want to integrate in my pipeline Stampy associated with BWA.

Do you think, I should make the realign step ?

Thanks !

Post edited by Geraldine_VdAuwera on

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