This is basically a theoretical question which is based on the following R output. I have the following R output which contains both crossed and nested effects.
The group(3 levels) and phase(2 levels) are crossed factors. The rat_id(8 levels) is nested under group. I need to find the all pairwise comparisons for main effects with family-wise confidence level of 95%.
Since the interaction effect between group and phase is not significant , i can use the Tukey procedure to find all pairwise comparisons for those 2 factors.
My question is , when there is a nested effect(like rat_id) , can i use the Tukey procedure ?
My thinking is that i can use it irrespective of the factor is crossed or nested. But i dont know whether my intuition is correct or not. it is really appreciated if someone help me to figure it out.