# [R] Stratifying level-1 variance with lmer()

From: David Afshartous <dafshartous_at_med.miami.edu>
Date: Tue, 05 Feb 2008 16:34:42 -0500

All,

I've fit some models via lme() and now I'm trying to fit similar models with lmer() for some simulations I'm running.

The model below (fm1) has an intercept variance that depends on treatment group. How would one accomplish a similar stratification for the level-1 variance, i.e., the within-group or patient variance?

With lme() I was able to do this via:
update(fm1,
weights = varIdent(form = ~ 1 | treatment.ind) )

However, this does not work for lmer(). Is there any way around this?

Model and simulated data below.

Cheers,
David

fm1 = lmer (y ~ treatment.ind + ( 0 + placebo.ind | person1) + (0 + treatment.ind | person1), data = fake)

```###################

```

Strat.mean.var.simple <- function (J, K){
# function to generate simple longit

```     time <- rep(seq(0,1, ,length=K), J) # K measurements
person <- rep(1:(J/2), each = K)
treatment <- rep(0:1, each = J/2)
treatment.ind <- rep(0:1, each = (J/2)*K)
person1 <- rep(1:J, ,each = K)
placebo.ind.1 <- treatment.ind < 1
placebo.ind = ifelse( placebo.ind.1, 1, 0)

#
mu.a.true.P = 4.8
mu.a.true.T = 8.8
sigma.a.true.P = 2.2
sigma.a.true.T = 4.2
sigma.y.true = 1.2

#
a.true.P = rnorm (J/2, mu.a.true.P, sigma.a.true.P)
a.true.T = rnorm (J/2, mu.a.true.T, sigma.a.true.T)

#
y.P <- rnorm( (J/2)*K, a.true.P[person], sigma.y.true)
y.T <- rnorm( (J/2)*K, a.true.T[person], sigma.y.true)
y <- c(y.P, y.T)
return ( data.frame (y, time, person1, treatment.ind, placebo.ind))
```
}

J = 10
K = 4
set.seed(500)
fake = Strat.mean.var.simple (J,K)

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