Description Usage Arguments Details Value Author(s)
Tests for the effect of a SNP on the outcome in the presence of epistasis.
1 2 3 |
n |
is the sample size |
nSim |
is the number of simulations |
MAF1 |
is the MAF for X1 |
gamma0 |
is the intercept for the association between the SNP X1 and the SNP X2 where logit(X2)=gamma0+gammaX1*X1 |
gammaX1 |
is the effect of SNP X1 on SNP X2 where logit(X2)=gamma0+gammaX1*X1 |
beta0 |
is the intercept for E[Y]=beta0+betaX1*X1+betaX2*X2+betaI*X1*X2 |
betaX1 |
is the association between X1 and Y for E[Y]=beta0+betaX1*X1+betaX2*X2+betaI*X1*X2 |
betaX2 |
is the association between X2 and Y for E[Y]=beta0+betaX1*X1+betaX2*X2+betaI*X1*X2 |
betaI |
is the interaction between X1 and X2 on Y for E[Y]=beta0+betaX1*X1+betaX2*X2+betaI*X1*X2 |
varY |
is the variance for Y |
alpha_level |
is the significance level, default 0.05 |
plot.pdf |
equals T to output a plot, equals F to not output a plot |
plot.name |
is the name of the plot |
SEED |
sets the seed |
Tests for the effect of a SNP on the outcome in the presence of epistasis.
a matrix of estimates and p-values
Sharon Lutz
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