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smFRET burst analysis pipeline. Examples of novel concepts implemented in FRETBursts are background estimation as a function of time,  background-dependent threshold for burst search, burst filtering based on   gamma-corrected burst sizes and burst weighting.  \item Modern software engineering design: we follows the \href{http://en.wikipedia.org/wiki/Don\%27t_repeat_yourself}{DRY principle} to reduce duplication and the \href{http://en.wikipedia.org/wiki/KISS_principle}{KISS principle} to avoid overenginering. over-enginering.  \item Defensive programming~\cite{Prli__2012}: we aim for the maximum code redability,  estensive unit and regression testing and continuous integration.  \end{enumerate}