qtl2 (version 0.24)

summary_compare_geno: Basic summary of compare_geno object

Description

From results of compare_geno(), show pairs of individuals with similar genotypes.

Usage

summary_compare_geno(object, threshold = 0.9, ...)
# S3 method for compare_geno
summary(object, threshold = 0.9, ...)
# S3 method for summary.compare_geno
print(x, digits = 2, ...)

Arguments

object

A square matrix with genotype comparisons for pairs of individuals, as output by compare_geno().

threshold

Minimum proportion matches for a pair of individuals to be shown.

...

Ignored

x

Results of summary.compare_geno()

digits

Number of digits to print

Value

Data frame with names of individuals in pair, proportion matches, number of mismatches, number of matches, and total markers genotyped. Last two columns are the numeric indexes of the individuals in the pair.

Examples

# NOT RUN {
grav2 <- read_cross2(system.file("extdata", "grav2.zip", package="qtl2"))
cg <- compare_geno(grav2)
summary(cg)
# }