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single-molecule FRET (smFRET) data. The software can analyze smFRET measurements
with one or several excitation spots~\cite{Ingargiola_2013}. The supported
excitation schemes include single lasers, two alternating CW lasers (µs-ALEX\cite{Kapanidis_2005})
and
2 two interleaved pulsed lasers (ns-ALEX or PIE\cite{M_ller_2005}).
FRETBursts is hosted and and openly developed~\cite{Prli__2012} on GitHub, where
issues, feature requests and contributions can be reported.
...
In section~\ref{sec:concepts} we
introduce a few preliminary concepts and some specific terminology.
In section~\ref{sec:analysis} we illustrate how to execute the several steps involved
in smFRET burst analysis: data loading (section~\ref{sec:dataload}), defining
the excitation alternation periods (section~\ref{sec:alternation}), background
correction (section~\ref{sec:bg_calc}), burst search (section~\ref{sec:burstsearch}),
burst filtering
(section~\ref{sec:burstsel}), (section~\ref{sec:burstsel}) and FRET fitting (section~\ref{sec:fretfit}).
For each step different
approached approaches and options are discussed.
In section~\ref{sec:conclusions} we conclude
by stating what we believe
to be are
the strengths of this software.
In addition to this paper, we refer the interested readers to the