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Antonino Ingargiola edited Concepts.tex
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For this reason we encourage performing a burst size selection after background
correction, possibly taking into account the γ factor, as discussed in
sections~\ref{sec:burstsizeweights} and~\ref{sec:burstsel}.
In special situations, users can also choose to replace this size selection
with another criterion such as burst duration or brightness.
\subsection{γ-corrected Burst Sizes and Weights}
\label{sec:burstsizeweights}
The number of photons detected during a burst, commonly called ``burst size'',
is usually computed using either all photons, or photons detected
during donor excitation period. To compute the burst
size $n_t$, size, FRETBursts uses
one of the following formulas:
\begin{equation}
\label{eq:burstsize_dex}
n_t n_{dex} = n_a + \gamma\,n_d
\end{equation}
\begin{equation}
...
\noindent where $n_d$, $n_a$ and $n_{aa}$ are, similarly to the attributes
in tables~\ref{tab:data_n}, the background-corrected
burst counts in different channels and excitation
periods,
and $\gamma$ is periods.
$\gamma$, dubbed the
γ factor. ``γ factor'', takes into account
different quantum yield of donor and acceptor dyes and different
photon detection efficiencies between donor and acceptor detection
channel~\cite{Lee_2005}.
Eq.~\ref{eq:burstsize_dex} includes only photons during donor excitation periods,
while eq.~\ref{eq:burstsize_allph} includes all photons.
Burst sizes computed according to eq.~\ref{eq:burstsize_dex}