coloc.susie_bf

a list with specifically named elements defining the dataset
to be analysed. See <code><a rd-options="" href="/link/check_dataset?package=coloc&version=5.1.0" data-mini-rdoc="coloc::check_dataset">check_dataset</a></code> for details.

dataset1

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

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

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

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

other arguments passed to <a rd-options="" href="/link/coloc.bf_bf?package=coloc&version=5.1.0" data-mini-rdoc="coloc::coloc.bf_bf">coloc.bf_bf</a>, in particular prior
values for causal association with one trait (p1, p2) or both (p12)

coloc for susie output + a separate BF matrix

Performs the colocalisation tests described in
Giambartolomei et al (2013) <doi:10.1371/journal.pgen.1004383>,
Wallace (2020) <doi:10.1371/journal.pgen.1008720>,
Wallace (2021) <doi:10.1101/2021.02.23.432421>.

Chris Wallace

coloc

Colocalisation Tests of Two Genetic Traits

Claudia Giambartolomei

Vincent Plagnol

coloc.susie_bf function

a list with specifically named elements defining the dataset
to be analysed. See <code><a rd-options='' href='check_dataset'>check_dataset</a></code> for details.

other arguments passed to <a rd-options='' href='coloc.bf_bf'>coloc.bf_bf</a>, in particular prior
values for causal association with one trait (p1, p2) or both (p12)

coloc.susie_bf: run coloc using susie to detect separate signals

Description

Usage

Arguments

Value