hka_test: Perform the HKA test.

In andrewparkermorgan/sfsr: Utilities for Manipulating Allele Frequency Spectra

Description

Perform the HKA test.

Usage

hka_test(x, y = NULL, simulate = FALSE, nsims = 1000, alpha = 0.05,
  scale = 1, ...)

Arguments

x	an SFS, or a list thereof (one per locus)
y	another SFS; if x not a list, this must be provided
simulate	logical; if TRUE, get p-values by coalescent simulations instead of analytical approximation
nsims	number of simulations to perform (if simulate == TRUE)
alpha	target significance level for parameter estimates (if simulate == TRUE)
scale	the scaling factor for θ; 1 = autosome, 3/4 = X chromosome, 1/4 = Y chromosome or mitochondria
...	ignored

Value

a list of class "htest" with test statistic, degrees of freedom, p-value, and estimates of coalescent parameters

References

Hudson RR, Kreitman M, Aguadé M (1987) A test of neutral molecular evolution based on nucleotide data. Genetics 116: 153-159.

andrewparkermorgan/sfsr documentation built on May 10, 2019, 11:10 a.m.