Perform genome wide association study (GWAS)

This function performs a GWAS on given genotype and phenotype data to find out how statistically associated SNPs are with a target disease.

Usage

GWAS(rds.obj, y, include = bigparallelr::rows_along(rds.obj$genotypes))

Arguments

rds.obj

A list of length 3 containing an FBM.code256 named genotypes and accompanying FAM and MAP tibbles.

y

Vector of regressands to regress on (typically case-control status of the genotypes in rds.obj)

include

Vector of rows to use in regression. Used for prediction. Default uses all rows.

Value

A data.frame with slopes of each regression, standard errors of each slope, t-scores associated with each slope and P-values of each slope.