coloc.susie_bf {coloc}

run coloc using susie to detect separate signals

Description

coloc for susie output + a separate BF matrix

Usage

coloc.susie_bf(
  dataset1,
  bf2,
  p1 = 1e-04,
  p2 = 1e-04,
  p12 = 5e-06,
  susie.args = list(),
  ...
)

Arguments

dataset1

a list with specifically named elements defining the dataset to be analysed. See check_dataset for details.

bf2

named vector of log BF, names are snp ids and will be matched to column names of susie object's alpha

p1

prior probability a SNP is associated with trait 1, default 1e-4

p2

prior probability a SNP is associated with trait 2, default 1e-4

p12

prior probability a SNP is associated with both traits, default 1e-5

susie.args

named list of arguments to be passed to susieR::susie_rss()

...

other arguments passed to coloc.bf_bf, in particular prior values for causal association with one trait (p1, p2) or both (p12)

Value

coloc.signals style result

Author(s)

Chris Wallace