Base Recalibration -Second recalibration table

Base Recalibration -Second recalibration table

0

Hello

I need some advice in the base recalibration step. I have build the recalibration model and have got the recalibrated bam file. To create the after model to estimate the remaining error, should I give the recalibrated bam file as input or the original bam file as input?. I am in the step to create the second recalibration table. But, not sure if the model estimates the remaining error using the recalibrated bam file.

Thanks


base


GATK


NGS


recalibration

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