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### Note: Simulations in Panel R20.11 take a long time
###################################################
### code chunk: Chap20.4init
###################################################
options(width = 65, digits = 5, show.signif.stars = FALSE)
date()
sessionInfo()
require(nlme) #
data(armd, package="nlmeU")
lm3.form <- # (12.9)
formula(visual ~ visual0 + time + treat.f)
fm16.5 <- #update(fm16.4, # M16.5 <- M16.4
lme (lm3.form,
random = list(subject = pdDiag(~time)),
weights = varPower(form = ~time), #
data = armd)
fm16.5ml <- update(fm16.5, method = "ML")
###################################################
### code chunk: R20.11
###################################################
library(nlmeU)
simY <- simulateY(fm16.5ml, nsim = 1000, seed = 1238917) # Simulated y from M16.1
auxDt <- subset(armd, # Auxiliary data
select = c(subject, visual, visual0, time, treat.f))
simYsumm <-
apply(simY,
MARGIN = 2, # Over columns
FUN = function(y){
auxDt$visual <- y # Dependent variable updated
auxFit <- # Update M16.1 with new y
update(fm16.5ml, data = auxDt)
summ <- summary(auxFit) # Summary
beta <- fixef(summ)
list(beta = beta)
})
simYsumm[[1]] # beta for the 1st simulation
###################################################
### code chunk: R20.12
###################################################
betaE <- sapply(simYsumm, # Matrix with betas
FUN = function(x) x$beta)
rowMeans(betaE) # Empirical beta (see Panel R20.6b)
cov(t(betaE)) # Emoirical Var(beta)
## sessionInfo
sessionInfo()
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