\hypertarget{structTwoDpfold__vars}{
\section{TwoDpfold\_\-vars Struct Reference}
\label{structTwoDpfold__vars}\index{TwoDpfold\_\-vars@{TwoDpfold\_\-vars}}
}


Variables compound for 2Dfold partition function folding.  
Collaboration diagram for TwoDpfold\_\-vars:\nopagebreak
\begin{figure}[H]
\begin{center}
\leavevmode
\includegraphics[width=154pt]{structTwoDpfold__vars__coll__graph}
\end{center}
\end{figure}
\subsection*{Data Fields}
\begin{DoxyCompactItemize}
\item 
\hypertarget{structTwoDpfold__vars_a67f37b8901b8d0a049c216d4c6241b07}{
char $\ast$ \hyperlink{structTwoDpfold__vars_a67f37b8901b8d0a049c216d4c6241b07}{ptype}}
\label{structTwoDpfold__vars_a67f37b8901b8d0a049c216d4c6241b07}

\begin{DoxyCompactList}\small\item\em Precomputed array of pair types. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a32c15a1e31856588259556c9020f32c6}{
char $\ast$ \hyperlink{structTwoDpfold__vars_a32c15a1e31856588259556c9020f32c6}{sequence}}
\label{structTwoDpfold__vars_a32c15a1e31856588259556c9020f32c6}

\begin{DoxyCompactList}\small\item\em The input sequence. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a240311ae1e8e121441651d6101e187ac}{
short $\ast$ \hyperlink{structTwoDpfold__vars_a240311ae1e8e121441651d6101e187ac}{S1}}
\label{structTwoDpfold__vars_a240311ae1e8e121441651d6101e187ac}

\begin{DoxyCompactList}\small\item\em The input sequences in numeric form. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a7292b6cbc1ee5bacf55e842f316c4bef}{
unsigned int \hyperlink{structTwoDpfold__vars_a7292b6cbc1ee5bacf55e842f316c4bef}{maxD1}}
\label{structTwoDpfold__vars_a7292b6cbc1ee5bacf55e842f316c4bef}

\begin{DoxyCompactList}\small\item\em Maximum allowed base pair distance to first reference. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a8900622d91454d2d037242e290e42834}{
unsigned int \hyperlink{structTwoDpfold__vars_a8900622d91454d2d037242e290e42834}{maxD2}}
\label{structTwoDpfold__vars_a8900622d91454d2d037242e290e42834}

\begin{DoxyCompactList}\small\item\em Maximum allowed base pair distance to second reference. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_ac2d3e6abf0cb0e1df363904fc938076e}{
int $\ast$ \hyperlink{structTwoDpfold__vars_ac2d3e6abf0cb0e1df363904fc938076e}{my\_\-iindx}}
\label{structTwoDpfold__vars_ac2d3e6abf0cb0e1df363904fc938076e}

\begin{DoxyCompactList}\small\item\em Index for moving in quadratic distancy dimensions. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a0699e194a797532c91b284ab10272384}{
int $\ast$ \hyperlink{structTwoDpfold__vars_a0699e194a797532c91b284ab10272384}{jindx}}
\label{structTwoDpfold__vars_a0699e194a797532c91b284ab10272384}

\begin{DoxyCompactList}\small\item\em Index for moving in the triangular matrix qm1. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_aea15706d27b6b0fc19f5773919f43a8a}{
unsigned int $\ast$ \hyperlink{structTwoDpfold__vars_aea15706d27b6b0fc19f5773919f43a8a}{referenceBPs1}}
\label{structTwoDpfold__vars_aea15706d27b6b0fc19f5773919f43a8a}

\begin{DoxyCompactList}\small\item\em Matrix containing number of basepairs of reference structure1 in interval \mbox{[}i,j\mbox{]}. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a1221396d712bf76b7f35297f2ab35a9f}{
unsigned int $\ast$ \hyperlink{structTwoDpfold__vars_a1221396d712bf76b7f35297f2ab35a9f}{referenceBPs2}}
\label{structTwoDpfold__vars_a1221396d712bf76b7f35297f2ab35a9f}

\begin{DoxyCompactList}\small\item\em Matrix containing number of basepairs of reference structure2 in interval \mbox{[}i,j\mbox{]}. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_accef8eaa05fa57ca33aa22cbc7b7aaff}{
unsigned int $\ast$ \hyperlink{structTwoDpfold__vars_accef8eaa05fa57ca33aa22cbc7b7aaff}{bpdist}}
\label{structTwoDpfold__vars_accef8eaa05fa57ca33aa22cbc7b7aaff}

\begin{DoxyCompactList}\small\item\em Matrix containing base pair distance of reference structure 1 and 2 on interval \mbox{[}i,j\mbox{]}. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_a7c9e9af6224d4696118e05835441863d}{
unsigned int $\ast$ \hyperlink{structTwoDpfold__vars_a7c9e9af6224d4696118e05835441863d}{mm1}}
\label{structTwoDpfold__vars_a7c9e9af6224d4696118e05835441863d}

\begin{DoxyCompactList}\small\item\em Maximum matching matrix, reference struct 1 disallowed. \item\end{DoxyCompactList}\item 
\hypertarget{structTwoDpfold__vars_affb913470783f9edb12a0bfc22466269}{
unsigned int $\ast$ \hyperlink{structTwoDpfold__vars_affb913470783f9edb12a0bfc22466269}{mm2}}
\label{structTwoDpfold__vars_affb913470783f9edb12a0bfc22466269}

\begin{DoxyCompactList}\small\item\em Maximum matching matrix, reference struct 2 disallowed. \item\end{DoxyCompactList}\end{DoxyCompactItemize}


\subsection{Detailed Description}
Variables compound for 2Dfold partition function folding. \begin{DoxySeeAlso}{See also}
\hyperlink{group__kl__neighborhood__pf_ga1aca740e2a75ab2b2951538266e53d64}{get\_\-TwoDpfold\_\-variables()}, \hyperlink{group__kl__neighborhood__pf_gacc2f66da7ee62096cab629fce7112216}{get\_\-TwoDpfold\_\-variables\_\-from\_\-MFE()}, \hyperlink{group__kl__neighborhood__pf_gafe994291458ee2ac34d3eb825ef62a15}{destroy\_\-TwoDpfold\_\-variables()}, \hyperlink{group__kl__neighborhood__pf_ga3e1cd3b24eb635c65181182cbb4ae3eb}{TwoDpfoldList()} 
\end{DoxySeeAlso}


The documentation for this struct was generated from the following file:\begin{DoxyCompactItemize}
\item 
/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/\hyperlink{data__structures_8h}{data\_\-structures.h}\end{DoxyCompactItemize}
