Load UK Biobank LD reference matrix and variant information — load_UKBB_LDREF • mapgen

Load UK Biobank LD reference matrix and variant information

load_UKBB_LDREF(
  LD_Blocks,
  locus,
  LDREF.dir,
  prefix = "ukb_b37_0.1",
  LD_matrix_ext = "RDS",
  snp_info_ext = "Rvar"
)

Arguments

LD_Blocks: A data frame of LD blocks
locus: locus ID
LDREF.dir: Directory of UKBB LD reference files
prefix: prefix name of the UKBB LD reference files
LD_matrix_ext: File extension of LD matrix files
snp_info_ext: File extension of SNP information files

Value

A list, containing LD (correlation) matrix R and a data frame with information of the variants in the LD matrix.