single_snp_association: Calculate genotype-phhenotype associations

In martini: GWAS Incorporating Networks

Description

Calculate the association between genotypes and a phenotype, adjusting by covariates.

Usage

single_snp_association(
  gwas,
  covars,
  score,
  samples = rep(TRUE, nrow(gwas[["fam"]]))
)

Arguments

covars	A data frame with the covariates. It must contain a column 'sample' containing the sample IDs, and an additional columns for each covariate.
score	String with the association test to perform. Possible values: chi2, glm.
genotypes	A SnpMatrix object with the genotype information.
phenotypes	A numeric vector with the phenotypes.

Value

A named vector with the association scores.

martini documentation built on Nov. 8, 2020, 5:39 p.m.