ldshrink: Calculate ldshrink adjusted LD matrix

In stephenslab/LDshrink: A one-stop R package for shrinkage estimation of linkage disequilibrium.

Description

Calculate ldshrink adjusted LD matrix

Usage

ldshrink(
  genotype_panel,
  map_data,
  m = 85,
  Ne = 11490.672741,
  cutoff = 0.001,
  isGeno = NA,
  cov_2_cor = TRUE,
  na.rm = TRUE,
  process_map = TRUE
)

Arguments

genotype_panel	'n' by 'p' genotype or haplotype numeric matrix from a contiguous region of the genome ()
map_data	vector of cumulative genetic map values. Must be sorted

Value

LD matrix

stephenslab/LDshrink documentation built on April 8, 2021, 1:52 a.m.