Nothing
rm(list=ls())
setwd(tempdir())
data(wheat)
n<-599 # should be <= 599
p<-1279 # should be <= than 1279=ncol(X)
nQTL<-30 # should be <= than p
X<-wheat.X[1:n,1:p]
## Centering and standarization
for(i in 1:p)
{
X[,i]<-(X[,i]-mean(X[,i]))/sd(X[,i])
}
# Simulation
b0<-rep(0,p)
whichQTL<-sample(1:p,size=nQTL,replace=FALSE)
b0[whichQTL]<-rnorm(length(whichQTL),
sd=sqrt(1/length(whichQTL)))
signal<-as.vector(X%*%b0)
error<-rnorm(n=n,sd=sqrt(0.5))
y<-signal +error
nIter=5000;
burnIn=2500;
thin=10;
saveAt='';
S0=NULL;
weights=NULL;
R2=0.5;
ETA<-list(list(X=X,model='BayesB',probIn=0.05))
fit_BB=BGLR(y=y,ETA=ETA,nIter=nIter,burnIn=burnIn,thin=thin,saveAt=saveAt,df0=5,S0=S0,weights=weights,R2=R2)
plot(fit_BB$yHat,y)
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