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-<div class="title">RNA Secondary Structure Folding</div> </div>
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<div class="contents">
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+<h1>RNA Secondary Structure Folding</h1>
<p>This module contains all functions related to thermodynamic folding of RNAs.
-<a href="#details">More...</a></p>
-<div id="dynsection-0" onclick="return toggleVisibility(this)" class="dynheader closed" style="cursor:pointer;">
- <img id="dynsection-0-trigger" src="closed.png" alt="+"/> Collaboration diagram for RNA Secondary Structure Folding:</div>
-<div id="dynsection-0-summary" class="dynsummary" style="display:block;">
-</div>
-<div id="dynsection-0-content" class="dyncontent" style="display:none;">
-<center><table><tr><td><img src="group__folding__routines.png" border="0" alt="" usemap="#group____folding____routines"/>
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-</td></tr></table></center>
+<a href="#_details">More...</a></p>
+
+<p><div class="dynheader">
+Collaboration diagram for RNA Secondary Structure Folding:</div>
+<div class="dynsection">
+<center><table><tr><td><img src="group__folding__routines.png" border="0" alt="" usemap="#group____folding____routines_map"/>
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-<table class="memberdecls">
-<tr class="heading"><td colspan="2"><h2><a name="groups"></a>
-Modules</h2></td></tr>
-<tr class="memitem:group__mfe__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__mfe__fold.html">Calculating Minimum Free Energy (MFE) Structures</a></td></tr>
-<tr class="memdesc:group__mfe__fold"><td class="mdescLeft"> </td><td class="mdescRight">This module contains all functions and variables related to the calculation of global minimum free energy structures for single sequences. <br/></td></tr>
-<tr class="memitem:group__pf__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__pf__fold.html">Calculating Partition Functions and Pair Probabilities</a></td></tr>
-<tr class="memdesc:group__pf__fold"><td class="mdescLeft"> </td><td class="mdescRight">This section provides information about all functions and variables related to the calculation of the partition function and base pair probabilities. <br/></td></tr>
-<tr class="memitem:group__subopt__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__subopt__fold.html">Enumerating Suboptimal Structures</a></td></tr>
-<tr class="memitem:group__cofold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__cofold.html">Calculate Secondary Structures of two RNAs upon Dimerization</a></td></tr>
-<tr class="memdesc:group__cofold"><td class="mdescLeft"> </td><td class="mdescRight">Predict structures formed by two molecules upon hybridization. <br/></td></tr>
-<tr class="memitem:group__consensus__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__consensus__fold.html">Predicting Consensus Structures from Alignment(s)</a></td></tr>
-<tr class="memdesc:group__consensus__fold"><td class="mdescLeft"> </td><td class="mdescRight">compute various properties (consensus MFE structures, partition function, Boltzmann distributed stochastic samples, ...) for RNA sequence alignments <br/></td></tr>
-<tr class="memitem:group__local__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__fold.html">Predicting Locally stable structures of large sequences</a></td></tr>
-<tr class="memitem:group__energy__parameters"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__energy__parameters.html">Change and Precalculate Energy Parameter Sets and Boltzmann Factors</a></td></tr>
-<tr class="memdesc:group__energy__parameters"><td class="mdescLeft"> </td><td class="mdescRight">All relevant functions to retrieve and copy precalculated energy parameter sets as well as reading/writing the energy parameter set from/to file(s). <br/></td></tr>
-<tr class="memitem:group__eval"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__eval.html">Energy evaluation</a></td></tr>
-<tr class="memdesc:group__eval"><td class="mdescLeft"> </td><td class="mdescRight">This module contains all functions and variables related to energy evaluation of sequence/structure pairs. <br/></td></tr>
-<tr class="memitem:group__inverse__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__inverse__fold.html">Searching Sequences for Predefined Structures</a></td></tr>
-<tr class="memitem:group__class__fold"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__class__fold.html">Classified Dynamic Programming</a></td></tr>
+</p>
+<table border="0" cellpadding="0" cellspacing="0">
+<tr><td colspan="2"><h2>Modules</h2></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__mfe__fold.html">Calculating Minimum Free Energy (MFE) Structures</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>This module contains all functions and variables related to the calculation of global minimum free energy structures for single sequences. </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__pf__fold.html">Calculating Partition Functions and Pair Probabilities</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>This section provides information about all functions and variables related to the calculation of the partition function and base pair probabilities. </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__subopt__fold.html">Enumerating Suboptimal Structures</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__cofold.html">Calculate Secondary Structures of two RNAs upon Dimerization</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>Predict structures formed by two molecules upon hybridization. </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__consensus__fold.html">Predicting Consensus Structures from Alignment(s)</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>compute various properties (consensus MFE structures, partition function, Boltzmann distributed stochastic samples, ...) for RNA sequence alignments </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__fold.html">Predicting Locally stable structures of large sequences</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__energy__parameters.html">Change and Precalculate Energy Parameter Sets and Boltzmann Factors</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>All relevant functions to retrieve and copy precalculated energy parameter sets as well as reading/writing the energy parameter set from/to file(s). </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__eval.html">Energy evaluation</a></td></tr>
+
+<p><tr><td class="mdescLeft"> </td><td class="mdescRight"><p>This module contains all functions and variables related to energy evaluation of sequence/structure pairs. </p>
+<br/></td></tr>
+</p>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__inverse__fold.html">Searching Sequences for Predefined Structures</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__class__fold.html">Classified Dynamic Programming</a></td></tr>
</table>
-<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
+<hr/><a name="_details"></a><h2>Detailed Description</h2>
<p>This module contains all functions related to thermodynamic folding of RNAs. </p>
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