summary.snp.data {GenABEL}R Documentation

function to summary GWAA data

Description

Provides summary of an object of class snp.data-class. Number of observed genotypes, allelic frequency, genotypic distrbution, P-value of the exact test for HWE and chromosome are listed

Usage

summary.snp.data(object, ...)

Arguments

object snp.data object
... additional arguments (not used)

Value

Data frame summary for snp.data object

Note

The P-values reported for X-chromosome are based on analysis of female data, but other statistics (freqencies, calls, ...) are based on all data. Statistics for Y-chromosome are based on male-only. P-HWE is not defined for mt- and Y- markers (set to 1.0).

Author(s)

Yurii Aulchenko

References

Wigginton, JE, Cutler, DJ, and Abecasis, GR (2005) A Note on Exact Tests of Hardy-Weinberg Equilibrium. American Journal of Human Genetics. 76: 887-93.

See Also

summary.gwaa.data, snp.data-class

Examples

data(srdta)
summary(srdta@gtdata[,1:20])

[Package GenABEL version 1.4-2 Index]