Numeric vector ($n$) or numeric matrix ($n$ x $t$) of observations describing the trait to be analyzed. NA is allowed.
gen
Numeric matrix containing the genotypic data. A matrix with $n$ rows of observations and ($m$) columns of molecular markers. SNPs must be coded as 0, 1, 2, for founder homozygous, heterozygous and reference homozigous. NA not allowed.
fam
Numeric vector of length ($n$) indicating which subpopulations ($i.e.$ family) each observation comes from. Default assumes that all observations are from the same populations.
thr
Threshold above which genotypes are considered identical. Default is 0.95, merging genotypes >95 percent identical.
Value
List containing the inputs without replicates. Groups of replicates are replaced by a single observation with the phenotypic expected value. The algorithm keeps the genotypic information of the first individual (genotypic matrix order).
Details
The algorithm start from generating a genomic identity matrix (IBS), with pairwise percentage of identical loci among individuals. Individuals above the threshold have the phenotypes merged while keeping only one genotype.