est_cond {coloc}

generate conditional summary stats

Description

Internal helper function for est_all_cond

Usage

est_cond(x, LD, YY, sigsnps, xtx = NULL)

Arguments

x

coloc dataset

LD

named matrix of r

YY

sum((Y-Ybar)^2)

sigsnps

names of snps to jointly condition on

xtx

optional, matrix X'X where X is the genotype matrix. If not available, will be estimated from LD, MAF, beta and sample size (the last three should be part of the coloc dataset)

Value

data.table giving snp, beta and varbeta on remaining snps after conditioning

Author(s)

Chris Wallace