The analysis of genotype data from recently admixed populations is providing important insights into medical genetics and population history. Such analyses have been used to identify novel disease loci, to understand recombination rate variation and to detect recent selection events. The utility of such studies crucially depends on accurate and unbiased estimation of the ancestry at every genomic locus. In this talk, I will provide an overview of methods for the inference of local and global ancestry in individuals of mixed ancestry, and I will describe the current challenges in analyzing the genetic data of such populations.
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