I was just wondering how to correctly deal with the following model design. I want to compare two different cell populations, each taken from the same mouse; 5 replicates each. RNA was extracted in two separate days.
so I have: 2 conditions (population 1 and 2), 5 pairs and 2 batches (day 1 and 2)
should I simply do the following: ~pairs+batches+condition
Am I right?