Plot proportion of individuals that has a parent assigned

For any pedigree, plot the proportion of individuals that has a genotyped, dummy, observed, or no dam/sire assigned.

Usage

PlotPropAssigned(Pedigree = NULL, DumPrefix = c("F0", "M0"), SNPd = NULL, ...)

Arguments

Pedigree

dataframe where the first 3 columns are id, dam, sire.

DumPrefix

character vector with prefixes for dummy dams (mothers) and sires (fathers), used to distinguish between dummies and non-dummies.

SNPd

character vector with ids of genotyped individuals (e.g. rownames of genotype matrix).

...

further arguments passed to barplot

Value

a 2x4 matrix with counts, returned invisibly.

Details

This function offers a more flexible interface to some of the plots included in SummarySeq

Examples

PlotPropAssigned(SeqOUT_griffin$Pedigree, SNPd = rownames(Geno_griffin))