RNOmni (version 0.1.4)

BAT: Basic Association Test

Description

Regression of the untransformed phenotype on genotype, covariates, and adjustments for population structure.

Usage

BAT(y, G, X, S, M = T)

Arguments

y

Numeric phenotype vector.

G

Snp by obs genotype matrix.

X

Obs by feature covariate matrix.

S

Obs by feature structure matrix.

M

Apply missingness filter? See missFilter.

Value

A numeric vector of p-values assessing the null hypothesis of no genotypic effect. P-values are estimated using the Wald statistic, and correspond to the rows of G.

Examples

# NOT RUN {
# BAT against normal phenotype
p = RNOmni::BAT(y=RNOmni::Y[,1],G=RNOmni::G[1:10,],X=RNOmni::X,S=RNOmni::S);
# }