progeny_haplotypes_counts function

Plot number of breakpoints by individuals

Generate graphic with the number of break points for each individual considering the most likely genotypes estimated by the HMM. Genotypes with same probability for two genotypes are removed. By now, only available for outcrossing and f2 intercross.

progeny_haplotypes_counts(x)

Arguments

• x: object of class onemap_progeny_haplotypes

Returns

a data.frame with columns individuals ID (ind), group ID (grp), homolog (homolog) and counts of breakpoints

Examples

data("onemap_example_out")
twopts <- rf_2pts(onemap_example_out)
lg1 <- make_seq(twopts, 1:5)
lg1.map <- map(lg1)
progeny_haplotypes_counts(progeny_haplotypes(lg1.map, most_likely = TRUE))