Compute the KING-robust Matrix for a bigSNP object

This function computes the KING-robust estimator of kinship.

snp_king(
  X,
  ind.row = bigstatsr::rows_along(X),
  ind.col = bigstatsr::cols_along(X),
  block.size = bigstatsr::block_size(nrow(X)) * 4
)

Arguments

X

a bigstatsr::FBM.code256 matrix (as found in the genotypes slot of a bigsnpr::bigSNP object).

ind.row

An optional vector of the row indices that are used. If not specified, all rows are used. Don't use negative indices.

ind.col

An optional vector of the column indices that are used. If not specified, all columns are used. Don't use negative indices.

block.size

maximum number of columns read at once.

Details

The last step is not optimised yet, as it does the division of the num by the den all in memory (on my TODO list...).