Your question is vague. For example, what are your criteria to get them "lined up" and how precisely you need it done? Are the signals periodic, or is there only one point in an entire set at which the measurement is to be "lined up"? Is the noise level such that there might be multiple data ranges where one signal might seem to "line up" with the other? Please describe and provide typical data sets you see, how you would like them "lined up," and what you have tried so far which didn't work.
Cameron
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