To give some background: I have a measurement device which can measure a concentration to plus/minus 1% vol/vol which is NIST traceable ("method A"). We then employed a novel technique to measure concentrations ("method B") which we compared against method A during a transient event. Over the course of the transient we collected several thousand measurements using both Method A and B.
At the end of the trial, how do I establish the accuracy of using the novel method? I am leaning towards using the Root Mean Squared Error for each measurement and the Standard Deviation of the errors (at some confidence interval). Is this appropriate? And how do you incorporate that the comparison is to Method A, which also has a known absolute uncertainty? How important is the mathematical error propagation versus experimental data with so many data points?
Many thanks in advance.