summary.snp.data {GenABEL} | R Documentation |
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
summary.snp.data(object, ...)
object |
snp.data object |
... |
additional arguments (not used) |
Data frame summary for snp.data object
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).
Yurii Aulchenko
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.
summary.gwaa.data
,
snp.data-class
data(srdta) summary(srdta@gtdata[,1:20])