Hi all, I'm trying to call variants using GATK best practices workflow. So after performing Realigner Target Creator step, one should jump on Base Recalibrator step. Unfortunatly, I don't see this program under GATK tab. Is there a way to perform this step in Galaxy?
There are the Count covariates and Table recalibration steps. Is a combination of these two steps is equivalent to Base recalibrator? Thank you for your help and time. Frank
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