AFtest {HardyWeinberg}

Exact test of equality of allele frequencies for males and females

Description

Function AFtest tests equality of allele frequencies for males and females for bi-allelic marker data by means of a Fisher exact test.

Usage

AFtest(x, verbose = TRUE, ...)

Arguments

x

a vector containg the genotypic counts c(A,B,AA,AB,BB) for a bi-allelic X-chromosomal markers.

verbose

verbose = TRUE prints results, verbose = FALSE is silent.

...

additional arguments for function fisher.test.

Details

Function AFtest constructs the contingency table of sex by allele, and call fisher.test to test for equality of allele frequencies. The test assumes Hardy-Weinberg equilibrium.

Value

AC

Two-way table of sex by allele

pval

p-value of the test

Author(s)

Jan Graffelman [e-mail]

See Also

HWChisq, HWExact

Examples

  rs5968922 <-  c(A=392, B=212, AA=275, AB=296, BB=80)
  AFtest(rs5968922)