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HWxtest (version 1.0.5)

Exact Tests for Hardy-Weinberg Proportions

Description

Tests whether a set of genotype counts fits the HW expectations. Exact tests performed by an efficient algorithm. Included test statistics are likelihood ratio, probability, U-score and Pearsons X2.

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Version

Install

install.packages('HWxtest')

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Version

1.0.5

License

GPL

Maintainer

Bill Engels

Last Published

November 10th, 2014

Functions in HWxtest (1.0.5)

xcountCutoff

Determine immediately whether number of tables is over a limit

fillUpper

Utility functions for handling genotype counts

xcount

Find Exact Number of Genotype Tables

hwdf

Construct a data frame from hwx.test output

observedProb

Compute observed statistics for a genotype count matrix

whales.genind

Bowhead whale data from Morin et al. 2012

print.hwtest

S3 Method for printing hwtest objects

mtest

Performs an exact test using Monte Carlo trials for Hardy-Weinberg proportions

p.value

Extract just the P value(s) from a Hardy-Weinberg test.

hwx.test

Test for HW by either full enumeration or Monte Carlo.

acount

Find Approximate Number of Genotype Tables

defaultHistobounds

Functions to plot a histogram of test statistic

genepop.to.genind

Imports a .txt file in GenePop format into an object of type genind

xtest

Performs an exact test with full enumeration for Hardy-Weinberg proportions.

HWcases

This is a data file with some HW examples in matrix form

listify

Convert results of hwx.test to a single list of hwtest objects.