binaries/src/ViennaRNA/doc/html/structTwoDfold__vars.html

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  71 <h1>TwoDfold_vars Struct Reference</h1><!-- doxytag: class="TwoDfold_vars" -->
  72 <p>Variables compound for 2Dfold MFE folding.
  73 <a href="#_details">More...</a></p>
  74 <div class="dynheader">
  75 Collaboration diagram for TwoDfold_vars:</div>
  76 <div class="dynsection">
  77 <div class="center"><img src="structTwoDfold__vars__coll__graph.png" border="0" usemap="#TwoDfold__vars_coll__map" alt="Collaboration graph"/></div>
  78 <map name="TwoDfold__vars_coll__map" id="TwoDfold__vars_coll__map">
  79 <area shape="rect" id="node2" href="structparamT.html" title="The datastructure that contains temperature scaled energy parameters." alt="" coords="29,105,99,135"/><area shape="rect" id="node4" href="structmodel__detailsT.html" title="The data structure that contains the complete model details used throughout the calculations..." alt="" coords="5,6,123,37"/></map>
  80 <center><span class="legend">[<a target="top" href="graph_legend.html">legend</a>]</span></center></div>
  81 <table border="0" cellpadding="0" cellspacing="0">
  82 <tr><td colspan="2"><h2>Data Fields</h2></td></tr>
  83 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ada74adef5f24b4b35c0b25da8223fe26"></a><!-- doxytag: member="TwoDfold_vars::P" ref="ada74adef5f24b4b35c0b25da8223fe26" args="" -->
  84 <a class="el" href="structparamT.html">paramT</a> *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#ada74adef5f24b4b35c0b25da8223fe26">P</a></td></tr>
  85 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Precomputed energy parameters and model details. <br/></td></tr>
  86 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ade5c7e9337a458ae20bac75abdc52d64"></a><!-- doxytag: member="TwoDfold_vars::do_backtrack" ref="ade5c7e9337a458ae20bac75abdc52d64" args="" -->
  87 int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#ade5c7e9337a458ae20bac75abdc52d64">do_backtrack</a></td></tr>
  88 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Flag whether to do backtracing of the structure(s) or not. <br/></td></tr>
  89 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="aedf60b8b26dae05ad266d3e098d18208"></a><!-- doxytag: member="TwoDfold_vars::ptype" ref="aedf60b8b26dae05ad266d3e098d18208" args="" -->
  90 char *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#aedf60b8b26dae05ad266d3e098d18208">ptype</a></td></tr>
  91 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Precomputed array of pair types. <br/></td></tr>
  92 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a3596f3d4d320318c4b8428e2abc7ab56"></a><!-- doxytag: member="TwoDfold_vars::sequence" ref="a3596f3d4d320318c4b8428e2abc7ab56" args="" -->
  93 char *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a3596f3d4d320318c4b8428e2abc7ab56">sequence</a></td></tr>
  94 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">The input sequence. <br/></td></tr>
  95 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ab9ee459ffbfb5d2c138a033516056cdc"></a><!-- doxytag: member="TwoDfold_vars::S1" ref="ab9ee459ffbfb5d2c138a033516056cdc" args="" -->
  96 short *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#ab9ee459ffbfb5d2c138a033516056cdc">S1</a></td></tr>
  97 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">The input sequences in numeric form. <br/></td></tr>
  98 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a621ed2ab02116f3f8f5e7120dec429eb"></a><!-- doxytag: member="TwoDfold_vars::maxD1" ref="a621ed2ab02116f3f8f5e7120dec429eb" args="" -->
  99 unsigned int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a621ed2ab02116f3f8f5e7120dec429eb">maxD1</a></td></tr>
 100 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Maximum allowed base pair distance to first reference. <br/></td></tr>
 101 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a03f198a4abdb3b784486d2ba5c533aa4"></a><!-- doxytag: member="TwoDfold_vars::maxD2" ref="a03f198a4abdb3b784486d2ba5c533aa4" args="" -->
 102 unsigned int&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a03f198a4abdb3b784486d2ba5c533aa4">maxD2</a></td></tr>
 103 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Maximum allowed base pair distance to second reference. <br/></td></tr>
 104 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="aa11f5bcd8c4fe70a91c155c877c855d5"></a><!-- doxytag: member="TwoDfold_vars::mm1" ref="aa11f5bcd8c4fe70a91c155c877c855d5" args="" -->
 105 unsigned int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#aa11f5bcd8c4fe70a91c155c877c855d5">mm1</a></td></tr>
 106 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Maximum matching matrix, reference struct 1 disallowed. <br/></td></tr>
 107 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a2eaa93316b6beb17531f0c078806036c"></a><!-- doxytag: member="TwoDfold_vars::mm2" ref="a2eaa93316b6beb17531f0c078806036c" args="" -->
 108 unsigned int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a2eaa93316b6beb17531f0c078806036c">mm2</a></td></tr>
 109 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Maximum matching matrix, reference struct 2 disallowed. <br/></td></tr>
 110 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a1a20cb06b58b75d1a3dbdbc8bc60d0a7"></a><!-- doxytag: member="TwoDfold_vars::my_iindx" ref="a1a20cb06b58b75d1a3dbdbc8bc60d0a7" args="" -->
 111 int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a1a20cb06b58b75d1a3dbdbc8bc60d0a7">my_iindx</a></td></tr>
 112 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Index for moving in quadratic distancy dimensions. <br/></td></tr>
 113 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a536525b98c1b633d4c5f2da4f8d78c18"></a><!-- doxytag: member="TwoDfold_vars::referenceBPs1" ref="a536525b98c1b633d4c5f2da4f8d78c18" args="" -->
 114 unsigned int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#a536525b98c1b633d4c5f2da4f8d78c18">referenceBPs1</a></td></tr>
 115 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Matrix containing number of basepairs of reference structure1 in interval [i,j]. <br/></td></tr>
 116 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="aa7abf73c3114cb5f0dc90e702fa9dd0f"></a><!-- doxytag: member="TwoDfold_vars::referenceBPs2" ref="aa7abf73c3114cb5f0dc90e702fa9dd0f" args="" -->
 117 unsigned int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#aa7abf73c3114cb5f0dc90e702fa9dd0f">referenceBPs2</a></td></tr>
 118 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Matrix containing number of basepairs of reference structure2 in interval [i,j]. <br/></td></tr>
 119 <tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="af1106e1a592e2dccc92b3452340549e0"></a><!-- doxytag: member="TwoDfold_vars::bpdist" ref="af1106e1a592e2dccc92b3452340549e0" args="" -->
 120 unsigned int *&nbsp;</td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html#af1106e1a592e2dccc92b3452340549e0">bpdist</a></td></tr>
 121 <tr><td class="mdescLeft">&nbsp;</td><td class="mdescRight">Matrix containing base pair distance of reference structure 1 and 2 on interval [i,j]. <br/></td></tr>
 122 </table>
 123 <hr/><a name="_details"></a><h2>Detailed Description</h2>
 124 <p>Variables compound for 2Dfold MFE folding. </p>
 125 <dl class="see"><dt><b>See also:</b></dt><dd><a class="el" href="group__kl__neighborhood__mfe.html#gac9284f132cf0eaa0a2f43590eda05488" title="Get a structure of type TwoDfold_vars prefilled with current global settings.">get_TwoDfold_variables()</a>, <a class="el" href="group__kl__neighborhood__mfe.html#ga05bf4f31d216b1b160fd2d3d68e9b487" title="Destroy a TwoDfold_vars datastructure without memory loss.">destroy_TwoDfold_variables()</a>, <a class="el" href="group__kl__neighborhood__mfe.html#ga47da790166020558d27323aef489703e" title="Compute MFE&#39;s and representative for distance partitioning.">TwoDfoldList()</a> </dd></dl>
 126 <hr/>The documentation for this struct was generated from the following file:<ul>
 127 <li>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/<a class="el" href="data__structures_8h_source.html">data_structures.h</a></li>
 128 </ul>
 129 </div>
 130 <hr size="1"/><address style="text-align: right;"><small>Generated on 11 Apr 2017 for RNAlib-2.1.2 by&nbsp;
 131 <a href="http://www.doxygen.org/index.html">
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