plotMissing: Plot of missing genotypes

In SNPassoc: SNPs-Based Whole Genome Association Studies

Plot of missing genotypes

Description

Plot a grid showing which genotypes are missing

Usage

plotMissing(x, print.labels.SNPs = TRUE, 
        main = "Genotype missing data", ...) 

Arguments

x	an object of class 'setupSNP'
print.labels.SNPs	should labels of SNPs be printed?
main	title to place on plot
...	extra arguments of 'image' function

Details

This function uses 'image' function to plot a grid with black pixels where the genotypes are missing.

Value

No return value, just the plot

See Also

setupSNP

Examples

 data(SNPs)
 data(SNPs.info.pos) 
 ans<-setupSNP(SNPs,colSNPs=6:40,sep="")
 plotMissing(ans)
 
 # The same plot with the SNPs sorted by genomic position and 
 # showing the information about chromosomes

 ans<-setupSNP(SNPs,colSNPs=6:40,sort=TRUE,SNPs.info.pos,sep="") 
 plotMissing(ans)

SNPassoc documentation built on Dec. 28, 2022, 1:59 a.m.