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-<a href="#func-members">Functions</a> </div>
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-<div class="title">Local MFE structure Prediction and Z-scores</div> </div>
-<div class="ingroups"><a class="el" href="group__local__fold.html">Predicting Locally stable structures of large sequences</a> | <a class="el" href="group__mfe__fold.html">Calculating Minimum Free Energy (MFE) Structures</a></div></div><!--header-->
<div class="contents">
-<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 Local MFE structure Prediction and Z-scores:</div>
-<div id="dynsection-0-summary" class="dynsummary" style="display:block;">
+<h1>Local MFE structure Prediction and Z-scores<br/>
+<small>
+[<a class="el" href="group__local__fold.html">Predicting Locally stable structures of large sequences</a>, <a class="el" href="group__mfe__fold.html">Calculating Minimum Free Energy (MFE) Structures</a>]</small>
+</h1>
+<p><div class="dynheader">
+Collaboration diagram for Local MFE structure Prediction and Z-scores:</div>
+<div class="dynsection">
+<center><table><tr><td><img src="group__local__mfe__fold.png" border="0" alt="" usemap="#group____local____mfe____fold_map"/>
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</div>
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-</td></tr></table></center>
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-<table class="memberdecls">
-<tr class="heading"><td colspan="2"><h2><a name="func-members"></a>
-Functions</h2></td></tr>
-<tr class="memitem:ga16e5a70e60835bb969eaecbe6482f1be"><td class="memItemLeft" align="right" valign="top">float </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__mfe__fold.html#ga16e5a70e60835bb969eaecbe6482f1be">Lfold</a> (const char *string, char *structure, int maxdist)</td></tr>
-<tr class="memdesc:ga16e5a70e60835bb969eaecbe6482f1be"><td class="mdescLeft"> </td><td class="mdescRight">The local analog to <a class="el" href="group__mfe__fold.html#gaadafcb0f140795ae62e5ca027e335a9b" title="Compute minimum free energy and an appropriate secondary structure of an RNA sequence.">fold()</a>. <a href="#ga16e5a70e60835bb969eaecbe6482f1be"></a><br/></td></tr>
-<tr class="memitem:gab6d79eecc180f586679f7b85cce5cbe9"><td class="memItemLeft" align="right" valign="top">float </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__mfe__fold.html#gab6d79eecc180f586679f7b85cce5cbe9">Lfoldz</a> (const char *string, char *structure, int maxdist, int zsc, double min_z)</td></tr>
+</p>
+<table border="0" cellpadding="0" cellspacing="0">
+<tr><td colspan="2"><h2>Functions</h2></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">float </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__mfe__fold.html#ga16e5a70e60835bb969eaecbe6482f1be">Lfold</a> (const char *string, char *structure, int maxdist)</td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">The local analog to <a class="el" href="group__mfe__fold.html#gaadafcb0f140795ae62e5ca027e335a9b" title="Compute minimum free energy and an appropriate secondary structure of an RNA sequence...">fold()</a>. <a href="#ga16e5a70e60835bb969eaecbe6482f1be"></a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">float </td><td class="memItemRight" valign="bottom"><a class="el" href="group__local__mfe__fold.html#gab6d79eecc180f586679f7b85cce5cbe9">Lfoldz</a> (const char *string, char *structure, int maxdist, int zsc, double min_z)</td></tr>
</table>
-<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
<hr/><h2>Function Documentation</h2>
-<a class="anchor" id="ga16e5a70e60835bb969eaecbe6482f1be"></a>
+<a class="anchor" id="ga16e5a70e60835bb969eaecbe6482f1be"></a><!-- doxytag: member="Lfold.h::Lfold" ref="ga16e5a70e60835bb969eaecbe6482f1be" args="(const char *string, char *structure, int maxdist)" -->
<div class="memitem">
<div class="memproto">
<table class="memname">
<tr>
<td class="memname">float Lfold </td>
<td>(</td>
- <td class="paramtype">const char * </td>
- <td class="paramname"><em>string</em>, </td>
+ <td class="paramtype">const char * </td>
+ <td class="paramname"> <em>string</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">char * </td>
- <td class="paramname"><em>structure</em>, </td>
+ <td class="paramtype">char * </td>
+ <td class="paramname"> <em>structure</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">int </td>
- <td class="paramname"><em>maxdist</em> </td>
+ <td class="paramtype">int </td>
+ <td class="paramname"> <em>maxdist</em></td><td> </td>
</tr>
<tr>
<td></td>
<td>)</td>
- <td></td><td></td>
+ <td></td><td></td><td></td>
</tr>
</table>
-</div><div class="memdoc">
+</div>
+<div class="memdoc">
-<p>The local analog to <a class="el" href="group__mfe__fold.html#gaadafcb0f140795ae62e5ca027e335a9b" title="Compute minimum free energy and an appropriate secondary structure of an RNA sequence.">fold()</a>. </p>
+<p>The local analog to <a class="el" href="group__mfe__fold.html#gaadafcb0f140795ae62e5ca027e335a9b" title="Compute minimum free energy and an appropriate secondary structure of an RNA sequence...">fold()</a>. </p>
<p>Computes the minimum free energy structure including only base pairs with a span smaller than 'maxdist'</p>
-<dl class="params"><dt>Parameters:</dt><dd>
- <table class="params">
- <tr><td class="paramname">string</td><td></td></tr>
- <tr><td class="paramname">structure</td><td></td></tr>
- <tr><td class="paramname">maxdist</td><td></td></tr>
+<dl><dt><b>Parameters:</b></dt><dd>
+ <table border="0" cellspacing="2" cellpadding="0">
+ <tr><td valign="top"></td><td valign="top"><em>string</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>structure</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>maxdist</em> </td><td></td></tr>
</table>
</dd>
</dl>
</div>
</div>
-<a class="anchor" id="gab6d79eecc180f586679f7b85cce5cbe9"></a>
+<a class="anchor" id="gab6d79eecc180f586679f7b85cce5cbe9"></a><!-- doxytag: member="Lfold.h::Lfoldz" ref="gab6d79eecc180f586679f7b85cce5cbe9" args="(const char *string, char *structure, int maxdist, int zsc, double min_z)" -->
<div class="memitem">
<div class="memproto">
<table class="memname">
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<td class="memname">float Lfoldz </td>
<td>(</td>
- <td class="paramtype">const char * </td>
- <td class="paramname"><em>string</em>, </td>
+ <td class="paramtype">const char * </td>
+ <td class="paramname"> <em>string</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">char * </td>
- <td class="paramname"><em>structure</em>, </td>
+ <td class="paramtype">char * </td>
+ <td class="paramname"> <em>structure</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">int </td>
- <td class="paramname"><em>maxdist</em>, </td>
+ <td class="paramtype">int </td>
+ <td class="paramname"> <em>maxdist</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">int </td>
- <td class="paramname"><em>zsc</em>, </td>
+ <td class="paramtype">int </td>
+ <td class="paramname"> <em>zsc</em>, </td>
</tr>
<tr>
<td class="paramkey"></td>
<td></td>
- <td class="paramtype">double </td>
- <td class="paramname"><em>min_z</em> </td>
+ <td class="paramtype">double </td>
+ <td class="paramname"> <em>min_z</em></td><td> </td>
</tr>
<tr>
<td></td>
<td>)</td>
- <td></td><td></td>
+ <td></td><td></td><td></td>
</tr>
</table>
-</div><div class="memdoc">
-<dl class="params"><dt>Parameters:</dt><dd>
- <table class="params">
- <tr><td class="paramname">string</td><td></td></tr>
- <tr><td class="paramname">structure</td><td></td></tr>
- <tr><td class="paramname">maxdist</td><td></td></tr>
- <tr><td class="paramname">zsc</td><td></td></tr>
- <tr><td class="paramname">min_z</td><td></td></tr>
+</div>
+<div class="memdoc">
+<dl><dt><b>Parameters:</b></dt><dd>
+ <table border="0" cellspacing="2" cellpadding="0">
+ <tr><td valign="top"></td><td valign="top"><em>string</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>structure</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>maxdist</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>zsc</em> </td><td></td></tr>
+ <tr><td valign="top"></td><td valign="top"><em>min_z</em> </td><td></td></tr>
</table>
</dd>
</dl>
</div>
</div>
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