nprcgenekeepr (version 2.0.0)

filterKinMatrix: Filter a kinship matrix to selected IDs

Description

Filter a kinship matrix to selected IDs

Usage

filterKinMatrix(ids, kmat)

Value

A numeric matrix that is the reduced kinship matrix with named rows and columns (row and col names are 'ids').

Arguments

ids

character vector containing the IDs of interest. The kinship matrix should be reduced to only include these rows and columns.

kmat

a numeric matrix of pairwise kinship coefficients. Animal IDs are the row and column names.

Examples

library(nprcgenekeepr)
ped <- nprcgenekeepr::qcPed
ped$gen <- findGeneration(ped$id, ped$sire, ped$dam)
kmat <- kinship(ped$id, ped$sire, ped$dam, ped$gen,
  sparse = FALSE
)
ids <- ped$id[c(189, 192, 194, 195)]
ncol(kmat)
nrow(kmat)
kmatFiltered <- filterKinMatrix(ids, kmat)
ncol(kmatFiltered)
nrow(kmatFiltered)