I have been asked to help a colleague with analysing the following experimental design.
2 treatments (fixed), 5 time points (fixed) with 4 animals (random) at each time point. The animals within each time point are not the same.
Each animal had two samples taken, one from a treated limb and one from an untreated limb so within each time point the samples from each animal are paired.
I would like to analyse this data as a nested ANOVA in R. The formula I have currently is:
value ~ treatment + time/individual
Testing the measured value for the treatment at each time with individual nested within time. This doesn't account for the paired nature of the samples though. Also this is the first example of a nested design I've been asked to analyse and I wonder if someone could advise me as to whether I'm on the right path.