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Properties of Weir and Cockerham’s Fst estimators and associated bootstrap confidence intervals

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  • Leviyang, Sivan
  • Hamilton, Matthew B.

Abstract

Weir and Cockerham introduced single locus and multiloci Fst estimators for the parameter θ. These estimators are commonly used, but little beyond their bias and variance is known. In this work, we develop formulas that allow us to describe how the underlying value of θ and the genetic diversity of sampled loci affect the distributions of these estimators. We show that in certain settings, these estimators are close to normal, while in others they are far from normal. We use these results to analyze confidence interval construction for θ, showing that the percentile-t bootstrap works well while the BCa bootstrap works poorly. Our results are derived using a novel coalescent based method.

Suggested Citation

  • Leviyang, Sivan & Hamilton, Matthew B., 2011. "Properties of Weir and Cockerham’s Fst estimators and associated bootstrap confidence intervals," Theoretical Population Biology, Elsevier, vol. 79(1), pages 39-52.
    • Handle: RePEc:eee:thpobi:v:79:y:2011:i:1:p:39-52
    DOI: 10.1016/j.tpb.2010.11.001
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    References listed on IDEAS

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    1. Samanta, Suvajit & Li, Yi-Ju & Weir, Bruce S., 2009. "Drawing inferences about the coancestry coefficient," Theoretical Population Biology, Elsevier, vol. 75(4), pages 312-319.
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    Cited by:

    1. Akerman, Ada & Bürger, Reinhard, 2014. "The consequences of dominance and gene flow for local adaptation and differentiation at two linked loci," Theoretical Population Biology, Elsevier, vol. 94(C), pages 42-62.

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    More about this item

    Keywords

    Fst; Coalescent; Bootstrap;
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