Biostatistics 666: Haplotype Estimation

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Objective

This lecture introduces several strategies for estimating individual haplotypes and their frequencies. At heart, all population-based haplotyping algorithms look for haplotypes that are shared across multiple individuals. The simplest approach for haplotyping using this information is Clark's 1990 algorithm, which is intuitively simple but quite effective in a variety of settings. The E-M algorithm, which provides an important refinements at the cost of more computation, is also introduced. Further refined methods are also discussed.

Slides

Slides in PDF Format

Recommended Reading

Clark (1990) Mol Biol Evol 7:111-122

Excoffier and Slatkin (1995) Mol Biol Evol 12:921-927