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Chunk #8 — Methods — Statistical Methods

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Ancestry informative marker sets for determining continental origin and admixture proportions in common populations in America.
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Fst was determined using Genetix software (Belkhir, et al., 2001) that applies the Weir and Cockerham algorithm (Weir and Cockerham, 1984) This algorithm defines Fst as (MSP-MSG)/[MSP +(nc-1)MSG] where MSP denotes the observed mean square errors for loci between populations and MSG denotes the mean square errors for loci within populations. The pairwise Fst values thus provide a measurement of inter-population genetic variance in comparison to intra-population genetic variance. Hardy-Weinberg (HW) equilibrium was examined using an exact test implemented in the FINETTI software that can be accessed interactively at the internet address provided in the Web Resources section. Population admixture proportions were determined using the Bayesian clustering algorithms developed by Pritchard and implemented in the program m STRUCTURE v2.1 (Falush, et al., 2003; Pritchard, et al., 2000a). Informativeness between multiple population groups was determined using the In algorithm (Rosenberg, et al., 2003).