We did measurements in duplicate 96-well plates (so 96 different samples equally split into two plate). We want to estimate variability between the plates. It seems to me that there are two important sources of variability, one related to time since one plate was measured at a different time and so all samples probably degraded equally in that plate and another related to other differences between the duplicates.
We just took the % CV for each duplicate and looked at average or median %CV. Is there a better way to look at how the plates are different with JMP? Also, It doesn't seem to me that "1-r2" (uneplained variation) of the correlation between the plates is the right way to calculate this.
