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From variant calling approach: Frequentist vs Bayesian
Frequentist's approach: Assume sequencing error distribution. Frequentist's method makes the null hypothesis that non-reference allele is caused by sequencing error and the sequencing error follows either binomial or Poisson distribution. Then we fit error rate into proposed distribution: Finally, we determine the variant based on the p-value. This method assumes same sequencing error rate across all chromosome position. More advanced method models sequencing error based on b