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+ <td style="padding-left: 0.5em;">
+ <div id="projectname">RNAlib-2.1.2
+ </div>
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+ <li><a href="modules.html"><span>Modules</span></a></li>
+ <li><a href="annotated.html"><span>Data Structures</span></a></li>
+ <li class="current"><a href="files.html"><span>Files</span></a></li>
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+ <ul class="tablist">
+ <li><a href="files.html"><span>File List</span></a></li>
+ <li class="current"><a href="globals.html"><span>Globals</span></a></li>
+ </ul>
+ </div>
+ <div id="navrow3" class="tabs2">
+ <ul class="tablist">
+ <li><a href="globals.html"><span>All</span></a></li>
+ <li><a href="globals_func.html"><span>Functions</span></a></li>
+ <li class="current"><a href="globals_vars.html"><span>Variables</span></a></li>
+ <li><a href="globals_defs.html"><span>Macros</span></a></li>
+ </ul>
+ </div>
+ <div id="navrow4" class="tabs3">
+ <ul class="tablist">
+ <li><a href="#index_a"><span>a</span></a></li>
+ <li><a href="#index_b"><span>b</span></a></li>
+ <li><a href="#index_c"><span>c</span></a></li>
+ <li><a href="#index_d"><span>d</span></a></li>
+ <li><a href="#index_e"><span>e</span></a></li>
+ <li><a href="#index_f"><span>f</span></a></li>
+ <li><a href="#index_g"><span>g</span></a></li>
+ <li><a href="#index_h"><span>h</span></a></li>
+ <li><a href="#index_i"><span>i</span></a></li>
+ <li><a href="#index_j"><span>j</span></a></li>
+ <li><a href="#index_l"><span>l</span></a></li>
+ <li><a href="#index_m"><span>m</span></a></li>
+ <li><a href="#index_n"><span>n</span></a></li>
+ <li><a href="#index_o"><span>o</span></a></li>
+ <li><a href="#index_p"><span>p</span></a></li>
+ <li><a href="#index_r"><span>r</span></a></li>
+ <li><a href="#index_s"><span>s</span></a></li>
+ <li><a href="#index_t"><span>t</span></a></li>
+ <li><a href="#index_u"><span>u</span></a></li>
+ <li><a href="#index_x"><span>x</span></a></li>
+ </ul>
+ </div>
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+<div id="side-nav" class="ui-resizable side-nav-resizable">
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+ class="ui-resizable-handle">
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+</div>
+<script type="text/javascript">
+$(document).ready(function(){initNavTree('globals_vars.html','');});
+</script>
+<div id="doc-content">
+<div class="contents">
+ 
+
+<h3><a class="anchor" id="index_a"></a>- a -</h3><ul>
+<li>aligned_line
+: <a class="el" href="dist__vars_8h.html#ac1605fe3448ad0a0b809c4fb8f6a854a">dist_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_b"></a>- b -</h3><ul>
+<li>backtrack_type
+: <a class="el" href="fold__vars_8h.html#a83bdb43472a259c71e69fa9f70f420c3">fold_vars.h</a>
+</li>
+<li>base_pair
+: <a class="el" href="fold__vars_8h.html#a0244a629b5ab4f58b77590c3dfd130dc">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_c"></a>- c -</h3><ul>
+<li>circ
+: <a class="el" href="fold__vars_8h.html#af9202a1a09f5828dc731e2d9a10fa111">fold_vars.h</a>
+</li>
+<li>cost_matrix
+: <a class="el" href="dist__vars_8h.html#ab65d8ff14c6937612212526a60f59b3c">dist_vars.h</a>
+</li>
+<li>csv
+: <a class="el" href="fold__vars_8h.html#af2763d55a74663a5e60652b8880baa5b">fold_vars.h</a>
+</li>
+<li>cut_point
+: <a class="el" href="fold_8h.html#ab9b2c3a37a5516614c06d0ab54b97cda">fold.h</a>
+, <a class="el" href="fold__vars_8h.html#ab9b2c3a37a5516614c06d0ab54b97cda">fold_vars.h</a>
+</li>
+<li>cv_fact
+: <a class="el" href="group__consensus__fold.html#gaf3cbac6ff5d706d6e414677841ddf94c">alifold.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_d"></a>- d -</h3><ul>
+<li>dangles
+: <a class="el" href="fold__vars_8h.html#a72b511ed1201f7e23ec437e468790d74">fold_vars.h</a>
+</li>
+<li>density_of_states
+: <a class="el" href="group__dos.html#ga937634a76b46a22530a74906f1957a9e">subopt.h</a>
+</li>
+<li>do_backtrack
+: <a class="el" href="fold__vars_8h.html#ad512b5dd4dbec60faccfe137bb474489">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_e"></a>- e -</h3><ul>
+<li>edit_backtrack
+: <a class="el" href="dist__vars_8h.html#aa03194c513af6b860e7b33e370b82bdb">dist_vars.h</a>
+</li>
+<li>energy_set
+: <a class="el" href="fold__vars_8h.html#afb1ef1166da85092ae8a325e02dcae71">fold_vars.h</a>
+</li>
+<li>eos_debug
+: <a class="el" href="group__eval.html#ga567530678f6260a1a649a5beca5da4c5">fold.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_f"></a>- f -</h3><ul>
+<li>F_monomer
+: <a class="el" href="group__pf__cofold.html#gac2d1851a710a8561390861155ca988fe">part_func_co.h</a>
+</li>
+<li>final_cost
+: <a class="el" href="group__inverse__fold.html#ga7f17d3b169af048d32bb185039a9c09c">inverse.h</a>
+</li>
+<li>fold_constrained
+: <a class="el" href="fold__vars_8h.html#a0afc287c2464866d94858c39175154af">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_g"></a>- g -</h3><ul>
+<li>give_up
+: <a class="el" href="group__inverse__fold.html#ga7ec4ba51f86e1717a1e174264e4a75ce">inverse.h</a>
+</li>
+<li>gquad
+: <a class="el" href="fold__vars_8h.html#a25f2bdcdf56e813d288845484a13d704">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_h"></a>- h -</h3><ul>
+<li>helix_size
+: <a class="el" href="RNAstruct_8h.html#a8218c0d581a3fba2a1a56a196abe19a5">RNAstruct.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_i"></a>- i -</h3><ul>
+<li>iindx
+: <a class="el" href="fold__vars_8h.html#a92089ae3a51b5d75a14ce9cc29cc8317">fold_vars.h</a>
+</li>
+<li>inv_verbose
+: <a class="el" href="group__inverse__fold.html#gafcfc65fba01b9cca5946726ed9057a63">inverse.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_j"></a>- j -</h3><ul>
+<li>james_rule
+: <a class="el" href="fold__vars_8h.html#af349001ad3b4d008d0051d935b1b6261">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_l"></a>- l -</h3><ul>
+<li>logML
+: <a class="el" href="fold_8h.html#a80c3c5fd35e7479704cc91d2d0367743">fold.h</a>
+, <a class="el" href="fold__vars_8h.html#a80c3c5fd35e7479704cc91d2d0367743">fold_vars.h</a>
+</li>
+<li>loop_degree
+: <a class="el" href="RNAstruct_8h.html#aef14e2f8ab3f61e8e659ba6b9003b08a">RNAstruct.h</a>
+</li>
+<li>loop_size
+: <a class="el" href="RNAstruct_8h.html#a3f31e0e48125601bfa57b52f8b038e8e">RNAstruct.h</a>
+</li>
+<li>loops
+: <a class="el" href="RNAstruct_8h.html#a439fcb9f8d4f9f4d2227fde5fbfecb30">RNAstruct.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_m"></a>- m -</h3><ul>
+<li>mirnatog
+: <a class="el" href="group__pf__cofold.html#gaff27888c4088cc1f60fd59cbd589474c">part_func_co.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_n"></a>- n -</h3><ul>
+<li>nc_fact
+: <a class="el" href="group__consensus__fold.html#ga502948a122a2af5b914355b1f3ea2f61">alifold.h</a>
+</li>
+<li>no_closingGU
+: <a class="el" href="fold__vars_8h.html#aa8d1c7b92489179e1eafa562b7bdd259">fold_vars.h</a>
+</li>
+<li>noGU
+: <a class="el" href="fold__vars_8h.html#abf380d09e4f1ab94fc6af57cf0ad5d32">fold_vars.h</a>
+</li>
+<li>noLonelyPairs
+: <a class="el" href="fold__vars_8h.html#a097eccaabd6ae8b4fef83cccff85bb5d">fold_vars.h</a>
+</li>
+<li>nonstandards
+: <a class="el" href="fold__vars_8h.html#a2695d91cc535d09c2eae5c3884e2ec64">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_o"></a>- o -</h3><ul>
+<li>oldAliEn
+: <a class="el" href="fold__vars_8h.html#ac408868ba00671cbc7d1d535105af045">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_p"></a>- p -</h3><ul>
+<li>pairs
+: <a class="el" href="RNAstruct_8h.html#a6341cbb704924824e0236c1dce791032">RNAstruct.h</a>
+</li>
+<li>pf_scale
+: <a class="el" href="fold__vars_8h.html#ad3b22044065acc6dee0af68931b52cfd">fold_vars.h</a>
+</li>
+<li>pr
+: <a class="el" href="fold__vars_8h.html#a0f5757427fd5f2f79d6fca0081cd5a52">fold_vars.h</a>
+</li>
+<li>print_energy
+: <a class="el" href="group__subopt__wuchty.html#ga5e57d914bcb5feeecdf520e25313fcfe">subopt.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_r"></a>- r -</h3><ul>
+<li>ribo
+: <a class="el" href="fold__vars_8h.html#a0656afca1d2853f9ee6591172f5638de">fold_vars.h</a>
+</li>
+<li>RibosumFile
+: <a class="el" href="fold__vars_8h.html#a5dbaa0cca2c8c82048a0f0e38e164944">fold_vars.h</a>
+</li>
+<li>rna_plot_type
+: <a class="el" href="plot__layouts_8h.html#a5964c4581431b098b80027d6e14dcdd4">plot_layouts.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_s"></a>- s -</h3><ul>
+<li>st_back
+: <a class="el" href="group__subopt__stochbt.html#gacd79b1a570e6ad9be24cb11fe8cae30a">part_func.h</a>
+</li>
+<li>subopt_sorted
+: <a class="el" href="group__subopt__wuchty.html#ga873cf8ed69e0437f8efa8b1fec854a0e">subopt.h</a>
+</li>
+<li>symbolset
+: <a class="el" href="group__inverse__fold.html#ga8f791e7740a5a28b9f6fafb4e60301d9">inverse.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_t"></a>- t -</h3><ul>
+<li>temperature
+: <a class="el" href="fold__vars_8h.html#ab4b11c8d9c758430960896bc3fe82ead">fold_vars.h</a>
+</li>
+<li>tetra_loop
+: <a class="el" href="fold__vars_8h.html#a4f6265bdf0ead7ff4628a360adbfd77e">fold_vars.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_u"></a>- u -</h3><ul>
+<li>uniq_ML
+: <a class="el" href="fold_8h.html#a6c5655c8b272e3e6cab74dd0f540294f">fold.h</a>
+</li>
+<li>unpaired
+: <a class="el" href="RNAstruct_8h.html#add2f952597e02d66e1116a9d11d252d6">RNAstruct.h</a>
+</li>
+</ul>
+
+
+<h3><a class="anchor" id="index_x"></a>- x -</h3><ul>
+<li>xsubi
+: <a class="el" href="utils_8h.html#af9a866c8417afda7368bbac939ab3c47">utils.h</a>
+</li>
+</ul>
+</div><!-- contents -->
+</div><!-- doc-content -->
+<!-- start footer part -->
+<div id="nav-path" class="navpath"><!-- id is needed for treeview function! -->
+ <ul>
+ <li class="footer">Generated on Wed Jul 24 2013 13:39:00 for RNAlib-2.1.2 by
+ <a href="http://www.doxygen.org/index.html">
+ <img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.8.1.1 </li>
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