plotGenotype - Show a colorful representation of a genotype

Description

plotGenotype plots a genotype table.

Usage

plotGenotype(genotype, facet_by = NULL, gene_sort = c("name",
"position"), text_size = 12, silent = FALSE, ...)

Arguments

genotype
a data.frame of alleles denoting a genotype, as returned by inferGenotype.
facet_by
a column name in genotype to facet the plot by. If NULL, then do not facet the plot.
gene_sort
a string defining the method to use when sorting alleles. If "name" then sort in lexicographic order. If "position" then sort by position in the locus, as determined by the final two numbers in the gene name.
text_size
the point size of the plotted text.
silent
if TRUE do not draw the plot and just return the ggplot object; if FALSE draw the plot.
additional arguments to pass to ggplot2::theme.

Value

A ggplot object defining the plot.

Examples

# Plot genotype
plotGenotype(SampleGenotype)

2


# Facet by subject
genotype_a <- genotype_b <- SampleGenotype
genotype_a$SUBJECT <- "A"
genotype_b$SUBJECT <- "B"
geno_sub <- rbind(genotype_a, genotype_b)
plotGenotype(geno_sub, facet_by="SUBJECT", gene_sort="pos")

4

See also

inferGenotype