I have a mer object that has fixed and random effects (lmer).
How do I extract the variance or standard deviation estimates for the random
and fixed effects? Here is a simplified version of my question:
pcrpred <- lmer(PCR ~ (1|TIME) + (1|ID), data = mydataPCRlong)
pcrpred
This gives a long output - not too long in this case. Anyway, how do I
explicitly select the variance? I can I extract part of the output? I want the
values themselves.
> pcrpred
Linear mixed model fit by REML ['merModLmerTest']
Formula: PCR ~ (1 | TIME) + (1 | ID)
Data: mydataPCRlong
REML criterion at convergence: 127761.9
Random effects:
Groups Name Std.Dev.
ID (Intercept) 22031
TIME (Intercept) 15182
Residual 33635
Number of obs: 5346, groups: ID, 891; TIME, 6
Fixed Effects:
(Intercept)
26791
I also tried:
summary(pcrpred)
Linear mixed model fit by REML t-tests use Satterthwaite approximations to
degrees of
freedom [merModLmerTest]
Formula: PCR ~ (1 | TIME) + (1 | ID)
Data: mydataPCRlong
REML criterion at convergence: 127761.9
Scaled residuals:
Min 1Q Median 3Q Max
-2.6822 -0.5974 -0.2283 0.5681 2.8165
Random effects:
Groups Name Variance Std.Dev.
ID (Intercept) 4.854e+08 22031
TIME (Intercept) 2.305e+08 15182
Residual 1.131e+09 33635
Number of obs: 5346, groups: ID, 891; TIME, 6
Fixed effects:
Estimate Std. Error df t value Pr(>|t|)
(Intercept) 26790.662 6258.611 5.142 4.281 0.00738 **
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
> print(VarCorr(pcrpred),comp=c("Variance","Std.Dev."))
Groups Name Variance Std.Dev.
ID (Intercept) 485373501 22031
TIME (Intercept) 230483110 15182
Residual 1131284840 33635
When I do:
print(VarCorr(pcrpred),comp=c(“Variance”,”Std.Dev.”))
I get:
Groups Name Variance Std.Dev.
ID (Intercept) 485373501 22031
TIME (Intercept) 230483110 15182
Residual 1131284840 33635
And I searched in forums, but another command I found was:
summary(pcrpred)@REmat
however I get:
Error: trying to get slot “REmat" from an object (class "summary.merMod") that
is not an S4 object
Can anyone
I have taken long looks at
str(study)
and there's nothing there! Also checked any extractor functions in the lme4
package to no avail. Please help!
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