Pedigree of a breeding experiment

Gets or sets the pedigree, a table with columns id, sire and dam. The pedigree may include ancestors that were never genotyped; those individuals are what allow Hmatrix() to combine pedigree and genomic information.

Usage

pedigree(x, ...)

pedigree(x) <- value

# S4 method for class 'BreedingExperiment'
pedigree(x, ...)

# S4 method for class 'BreedingExperiment'
pedigree(x) <- value

Arguments

x

A BreedingExperiment object.

...

Unused.

value

A data frame with columns id, sire and dam.

Value

pedigree() returns a S4Vectors::DataFrame; the replacement form returns the updated object.

Examples

set.seed(1)
be <- simulateBreeding(n_ind = 8, n_marker = 20)
head(pedigree(be))
#> DataFrame with 6 rows and 3 columns
#>            id        sire         dam
#>   <character> <character> <character>
#> 1      ind001          NA          NA
#> 2      ind002          NA          NA
#> 3      ind003          NA          NA
#> 4      ind004          NA          NA
#> 5      ind005          NA          NA
#> 6      ind006          NA          NA