Base Recalibration -Second recalibration table
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10 months ago
priya.bmg ▴ 20

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 • 235 views