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Get LD matrix using local plink binary and reference dataset

Source: R/ld_matrix.R
ld_matrix_local.Rd

Get LD matrix using local plink binary and reference dataset

Usage

ld_matrix_local(variants, bfile, plink_bin, with_alleles = TRUE)

Arguments

variants

List of variants (rsids)

bfile

Path to bed/bim/fam ld reference panel

Specify path to plink binary. Default = NULL. See https://github.com/explodecomputer/plinkbinr for convenient access to plink binaries

with_alleles

Whether to append the allele names to the SNP names. Default: TRUE

Value

data frame