[R-sig-ME] confidence intervals in lmer

Rachel Cohen s0957429 at sms.ed.ac.uk
Sat Jan 22 20:57:25 CET 2011

Hi, I am trying to get the 95% confidence intervals for the coefficients 
in the lmer model below.


I have tried to use the function ci(mod5) but get the following error 
Error in .local(object, n, verbose, ...) :
   Code for non-trivial theta_T not yet written

However, the function works when I alter my model as below:

I'm not sure this what this altered model means, (i.e. why are random 
effects terms different, i'm still allowing both the intercept and the 
slope of height to vary by group?) but the model output is different 
from my original model.  The coefficients are different and I seem to 
now have eliminated any correlation between the slope and intercept. 
Which I'm thinking was the reason why the ci function wouldn't work in 
the first place?

Mod 6 output
Random effects:
  Groups       Name              Variance Std.Dev.
  species_site (Intercept)       2.32117  1.52354
  species_site centre.log.height 0.47887  0.69200
  Residual                       0.10036  0.31679
Number of obs: 302, groups: species_site, 12

Fixed effects:
                   Estimate Std. Error t value
(Intercept)       -0.47716    0.44829  -1.064
centre.log.dbh     1.68772    0.07536  22.396
centre.log.height  0.67887    0.24345   2.789

Correlation of Fixed Effects:
             (Intr) cntr.lg.d
cntr.lg.dbh  0.026
cntr.lg.hgh  0.028 -0.302

Any help in understanding whats going on would be great!



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