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.

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