Can you post the cluster density (K/mm^2) for these runs and the version of chemistry you are using? It is possible that you have an overloaded run this time and that may have resulted in Q-score drops. Once the clusters become fat the instrument has trouble distinguishing them apart.
What kind of data is this (we seem to be doing some of this backwards)?
What kind of data is this (we seem to be doing some of this backwards)?
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