gxeRC: gxeRC

In SharonLutz/gxeRC: Power analyses for gene by environment interactions of both rare and common variants

Description

A function to run a power analysis for gene by environment interactions of both rare and common variants.

Usage

gxeRC(n = 5000, nSNP = 3, MAF = c(0.05, 0.01, 0.005), betaX = c(0.25, 0.25, 0.25), betaI = c(0, 0.05, 0.1), 
zMu = 0, zVar = 1, yVar = 1, nSim = 1000, alpha = 0.05, plot.name = "gxeRC.pdf")

Arguments

n	is the number of subjects
nSNP	is the number of SNPS
MAF	is the minor allele frequency for the SNPS
betaX	is the genetic effect of each SNP
betaI	is the effect of interaction for each SNP
zMu	is the mean for the environmental effect
zVar	is the variance for the environmental effect
yVar	is the variance for the outcome Y
nSim	is the number of simulations
alpha	is the alpha level, default=0.05
plot.name	is the name of the corresponding plot

Value

a matrix of the power of each SNP, and all SNPs together

References

Lutz SM, Frederiksen B, Begum F, Cho MH, Hobbs B, McDonald ML, Parker MM, DeMeo DL, Jiang L, Eringher M, Young K, Foreman MG, Kinney GL, Make BJ, Lomas DA, Bakke P, Gulsvik A, Crapo JD, Silverman EK, Beaty TH, Hokanson JE. (2018) Common and Rare Variants Analysis of Smoking Related Traits Among Current and Former Smokers of European and African Ancestry. (Submitted).

Examples

gxeRC(n=5000)

SharonLutz/gxeRC documentation built on March 7, 2020, 7:10 p.m.