Optimal neutrality tests based on the frequency spectrum

Luca FerrettiSebastian Ramos-Onsins


The ascertainment of the demographic and selective history of populations has been a major research goal in genetics for decades. To that end, numerous statistical tests have been developed to detect deviations between expected and observed frequency spectra, e.g., Tajima's D, Fu and Li's F and D tests, and Fay and Wu's H. Recently, Achaz developed a general framework to generate tests that detect deviations in the frequency spectrum. In a further development, we argue that the results of these tests should be as independent on the sample size as possible and propose a scale-free form for them. Furthermore, using the same framework as that of Achaz, we develop a new family of neutrality tests based on the frequency spectrum that are optimal against a chosen alternative evolutionary scenario. These tests maximize the power to reject the standard neutral model and are scalable with the sample size. Optimal tests are derived for several alternative evolutionary scenarios, including demographic processes (population bottleneck, expansion, contraction) and selective sweeps. Within the same framework, we also derive an optimal general test given a generic evolutionary scenario as a null model. All formulas are relatively simple and c...Continue Reading


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May 23, 2013·PLoS Computational Biology·Haipeng Li, Thomas Wiehe
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Oct 8, 2020·Journal of Fungi·Daniel Wagner C L SantosConceição de Maria Pedrozo E Silva de Azevedo

Related Concepts

Genetics, Population
Selection, Genetic
Evolution, Neutral
Cell Growth
Laboratory Procedures
Neutralization Tests

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