GxEscreen

a data frame with covariate information. Col 1 should be phenotype,
col 2 should be environmental factor, col 3 and later should be additional covariates

a genotype matrix with 0-1-2 coding

geno

the number of replicates in obtaining the p-value (standard 1e5)

nsim

the number of knots used to control the flexibility in modeling GxE interaction

Function to test for the joint genetic and gene-environment
interaction effects for a set of variant using a LRT model

A novel statistical model to detect the joint genetic and dynamic gene-environment (GxE) interaction with continuous traits in genetic association studies. It uses varying-coefficient models to account for different GxE trajectories, regardless whether the relationship is linear or not. The package includes one function, GxEtest(), to test a single genetic variant (e.g., a single nucleotide polymorphism or SNP), and another function, GxEscreen(), to test for a set of genetic variants. The method involves a likelihood ratio test described in Crainiceanu, C. M., and Ruppert, D. (2004) <doi:10.1111/j.1467-9868.2004.00438.x>.

GxEscreen: Gene-Environment Interaction: Genome-wide Screen

Description

Usage

Arguments

Value

Examples