inbreedR (version 0.3.3)

HHC: Calculates heterzygosity-heterozygosity correlations with standardized multilocus heterozygosities (sMLH)

Description

Loci are randomly devided into two equal groups and the correlation coefficient between the resulting sMLH values is calculated.

Usage

HHC(genotypes, reps = 100, CI = 0.95)

Arguments

genotypes

data.frame with individuals in rows and loci in columns, containing genotypes coded as 0 (homozygote), 1 (heterozygote) and NA (missing)

reps

number of repetitions, i.e. splittings of the dataset

CI

size of the confidence interval around the mean het-het correlation (default is 0.95)

Value

call

function call.

HHC_vals

vector of HHC's obtained by randomly splitting the dataset

summary_exp_r2

r2 mean and sd for each number of subsetted loci

nobs

number of observations

nloc

number of markers

References

Balloux, F., Amos, W., & Coulson, T. (2004). Does heterozygosity estimate inbreeding in real populations?. Molecular Ecology, 13(10), 3021-3031.

Examples

# NOT RUN {
data(mouse_msats)
genotypes <- convert_raw(mouse_msats)
(out <- HHC(genotypes, reps = 100, CI = 0.95))

# }