hwexact

snphwe

This function implements an exact SNP test of
 Hardy-Weinberg equilibrium. It is a wrapper for <code>snphwe</code>

htest

univar

Fits models for genotypic disequilibria, as described in
Huttley and Wilson (2000) <doi:10.1093/genetics/156.4.2127>, Weir (1996) and Weir and Wilson (1986).
Contrast terms are available that account for first order interactions
between loci. Also implements, for a single locus in a single
population, a conditional exact test for Hardy-Weinberg equilibrium.

John Maindonald

hwde

Models and Tests for Departure from Hardy-Weinberg Equilibrium
and Independence Between Loci

hwexact function

<dl> <dt>obs.hom1</dt>
<dd>Observed number of individuals homozygous for the common allele.</dd> <dt>obs.hets</dt>
<dd>Observed number of heterozygous individuals.</dd> <dt>obs.hom2</dt>
<dd>Observed number of individuals homozygous for the rare allele.</dd> <dt>data</dt>
<dd>If not <code>NULL</code>, specifies a data frame holding the data.</dd> <dt>loci</dt>
<dd>If <code>data</code> is not <code>NULL</code>, column that holds some
 combination of symbols of the form <code>AA</code>, <code>Aa</code> and <code>aa</code>.</dd> <dt>observed</dt>
<dd>Column that holds the frequencies, if <code>data</code> is not
 <code>NULL</code>.</dd></dl>

Arguments

Randall Johnson -- adapted from code by Wigginton et al

Author

Exact test of HWE — hwexact

<dl>

 <dt>obs.hom1</dt>
<dd>Observed number of individuals homozygous for the common allele.</dd>

 <dt>obs.hets</dt>
<dd>Observed number of heterozygous individuals.</dd>

 <dt>obs.hom2</dt>
<dd>Observed number of individuals homozygous for the rare allele.</dd>

 <dt>data</dt>
<dd>If not <code>NULL</code>, specifies a data frame holding the data.</dd>

 <dt>loci</dt>
<dd>If <code>data</code> is not <code>NULL</code>, column that holds some
 combination of symbols of the form <code>AA</code>, <code>Aa</code> and <code>aa</code>.</dd>

 <dt>observed</dt>
<dd>Column that holds the frequencies, if <code>data</code> is not
 <code>NULL</code>.</dd>

</dl>

hwexact: Exact test of HWE

Description

Usage

Value

Arguments

Author

References

Examples