Eitan Lerner edited Introduction.tex  over 9 years ago

Commit id: 1cd13f32f208ebf954118ee11320468bd0c27571

deletions | additions      

       

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