## Slightly off topic, but related :-) [Design Issues]

Hi ElMaestro,

» Note e.g. that the two fits have different residuals and residual df's, which to me means incomplete subjects are not deleted (R does not know and is not being told something is incomplete; the full rank design matrix is still invertible and so on).

 X3 <- Xm[-7,] M3 <- lm(logCmax ~ factor(Seq)+factor(Subj)+factor(Trt)+factor(Per), data=X3) anova(M3) lsmeans(M3, "Trt") confint(pairs(lsmeans(M3, "Trt"), reverse =F), level=0.9) 
Xm has missing period (1) for subject 4, X3 has no subject 4. compare anova(M2) and anova(M3), residual and df of residual are same. 90% CI also same. So wouldn't it mean that R deleted the extra period (2) of subject 4 in Xm automatically when doing BE evaluation? Lsmeans are different, so subject 4 period 2 was kept for that calculation. I woulds say that this behaviour is the same as SAS.

All the best,
Shuanghe