Base Recalibration -Second recalibration table
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
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