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=== Estimation of Genotype Frequencies without assuming HWE ===
=== Estimation of Genotype Frequencies without assuming HWE ===
We propose an EM algorithm to estimate the genotype frequencies without assuming HWE. The posterior probability of the genotype given the reads for individual k ($R_k$) for the $l$th iteration is given by: \\
We propose an EM algorithm to estimate the genotype frequencies without assuming HWE. The posterior probability of the genotype given the reads for individual k (<math>R_k</math>) for the <math>l</math>th iteration is given by:
<math>
<math>
