ped2mit {BGmisc}

Take a pedigree and turn it into a mitochondrial relatedness matrix

Description

Take a pedigree and turn it into a mitochondrial relatedness matrix

Usage

ped2mit(
  ped,
  max.gen = Inf,
  sparse = FALSE,
  verbose = FALSE,
  gc = FALSE,
  flatten.diag = FALSE
)

Arguments

ped

a pedigree dataset. Needs ID, momID, and dadID columns

max.gen

the maximum number of generations to compute (e.g., only up to 4th degree relatives). The default of Inf uses as many generations as there are in the data.

sparse

logical. If TRUE, use and return sparse matrices from Matrix package

verbose

logical. If TRUE, print progress through stages of algorithm

gc

logical. If TRUE, do frequent garbage collection via gc to save memory

flatten.diag

logical. If TRUE, overwrite the diagonal of the final relatedness matrix with ones

Details

The algorithms and methodologies used in this function are further discussed and exemplified in the vignette titled "examplePedigreeFunctions".