susieR_pipeline: Perform fine mapping pipeline using susieR

In MRCIEU/gwasglue: GWAS summary data sources connected to analytical tools

Description

Clumps data, then maps those to LD representative regions. Within each detected LD representative region, fine mapping is performed

Usage

susieR_pipeline(
  vcffile,
  bfile,
  plink_bin,
  pop,
  threads = 1,
  clump_kb = 1000,
  clump_r2 = 0.001,
  clump_p = 5e-08,
  ...
)

Arguments

vcffile	Path to vcf file
bfile	Path to ld reference panel
plink_bin	Path to plink
pop	EUR, ASN or AFR
clump_kb	<what param does>
clump_r2	<what param does>
clump_p	<what param does>
...	Optional arguments to be passed to susie_rss

Value

List

MRCIEU/gwasglue documentation built on Feb. 15, 2022, 3:25 p.m.