Gather the cis-genotypes for a given biomarker

The function takes in a biomarker of interest (mediator or gene) and gather the cis-genotypes in a user-defined window around the biomarker.

getCisGenotypes(biomInt, locs, snps, snpLocs, cisDist = 5e+05)

Arguments

biomInt

character, identifier for biomarker of interest
locs

data frame, location file for the biomarkers
snps

data frame, SNP dosages
snpLocs

data frame, MatrixEQTL locations for SNPs
cisDist

numeric, window for cis distance

Value

list with matrix of cis-genotypes, vector of SNP names, and data frame of SNP locations