PoooL is a novel constrained EM algorithm to estimate frequencies of single-nucleotide polymorphism (SNP) haplotypes from DNA pools. A quantity called importance factor is introduced to measure the contribution of a haplotype to the likelihood. Under the assumption of asymptotic normality of the estimated allele frequencies and a system of linear constraints on haplotype frequencies the importance factor remains a constant in the iterative maximization process.
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Han Zhang, Hsin-Chou Yang and Yaning Yang
PoooL: An efficient algorithm for estimating haplotype frequencies from large DNA pools
Bioinformatics 2008 24(17):1942-1948