website/docs/full_javadoc/compbio/data/sequence/package-tree.html

   1 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
   2 <!-- NewPage -->
   3 <html lang="en">
   4 <head>
   5 <!-- Generated by javadoc (1.8.0_121) on Fri Apr 21 15:32:50 BST 2017 -->
   6 <title>compbio.data.sequence Class Hierarchy</title>
   7 <meta name="date" content="2017-04-21">
   8 <link rel="stylesheet" type="text/css" href="../../../stylesheet.css" title="Style">
   9 <script type="text/javascript" src="../../../script.js"></script>
  10 </head>
  11 <body>
  12 <script type="text/javascript"><!--
  13     try {
  14         if (location.href.indexOf('is-external=true') == -1) {
  15             parent.document.title="compbio.data.sequence Class Hierarchy";
  16         }
  17     }
  18     catch(err) {
  19     }
  20 //-->
  21 </script>
  22 <noscript>
  23 <div>JavaScript is disabled on your browser.</div>
  24 </noscript>
  25 <!-- ========= START OF TOP NAVBAR ======= -->
  26 <div class="topNav"><a name="navbar.top">
  27 <!--   -->
  28 </a>
  29 <div class="skipNav"><a href="#skip.navbar.top" title="Skip navigation links">Skip navigation links</a></div>
  30 <a name="navbar.top.firstrow">
  31 <!--   -->
  32 </a>
  33 <ul class="navList" title="Navigation">
  34 <li><a href="../../../overview-summary.html">Overview</a></li>
  35 <li><a href="package-summary.html">Package</a></li>
  36 <li>Class</li>
  37 <li>Use</li>
  38 <li class="navBarCell1Rev">Tree</li>
  39 <li><a href="../../../deprecated-list.html">Deprecated</a></li>
  40 <li><a href="../../../index-files/index-1.html">Index</a></li>
  41 <li><a href="../../../help-doc.html">Help</a></li>
  42 </ul>
  43 </div>
  44 <div class="subNav">
  45 <ul class="navList">
  46 <li><a href="../../../compbio/data/msa/jaxws/package-tree.html">Prev</a></li>
  47 <li><a href="../../../compbio/engine/package-tree.html">Next</a></li>
  48 </ul>
  49 <ul class="navList">
  50 <li><a href="../../../index.html?compbio/data/sequence/package-tree.html" target="_top">Frames</a></li>
  51 <li><a href="package-tree.html" target="_top">No&nbsp;Frames</a></li>
  52 </ul>
  53 <ul class="navList" id="allclasses_navbar_top">
  54 <li><a href="../../../allclasses-noframe.html">All&nbsp;Classes</a></li>
  55 </ul>
  56 <div>
  57 <script type="text/javascript"><!--
  58   allClassesLink = document.getElementById("allclasses_navbar_top");
  59   if(window==top) {
  60     allClassesLink.style.display = "block";
  61   }
  62   else {
  63     allClassesLink.style.display = "none";
  64   }
  65   //-->
  66 </script>
  67 </div>
  68 <a name="skip.navbar.top">
  69 <!--   -->
  70 </a></div>
  71 <!-- ========= END OF TOP NAVBAR ========= -->
  72 <div class="header">
  73 <h1 class="title">Hierarchy For Package compbio.data.sequence</h1>
  74 <span class="packageHierarchyLabel">Package Hierarchies:</span>
  75 <ul class="horizontal">
  76 <li><a href="../../../overview-tree.html">All Packages</a></li>
  77 </ul>
  78 </div>
  79 <div class="contentContainer">
  80 <h2 title="Class Hierarchy">Class Hierarchy</h2>
  81 <ul>
  82 <li type="circle">java.lang.Object
  83 <ul>
  84 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/Alignment.html" title="class in compbio.data.sequence"><span class="typeNameLink">Alignment</span></a></li>
  85 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/AlignmentMetadata.html" title="class in compbio.data.sequence"><span class="typeNameLink">AlignmentMetadata</span></a></li>
  86 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence"><span class="typeNameLink">ClustalAlignmentUtil</span></a></li>
  87 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/FastaReader.html" title="class in compbio.data.sequence"><span class="typeNameLink">FastaReader</span></a> (implements java.util.Iterator&lt;E&gt;)</li>
  88 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence"><span class="typeNameLink">FastaSequence</span></a></li>
  89 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/Range.html" title="class in compbio.data.sequence"><span class="typeNameLink">Range</span></a> (implements java.lang.Comparable&lt;T&gt;)</li>
  90 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/RNAStructReader.html" title="class in compbio.data.sequence"><span class="typeNameLink">RNAStructReader</span></a></li>
  91 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence"><span class="typeNameLink">Score</span></a> (implements java.lang.Comparable&lt;T&gt;)</li>
  92 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence"><span class="typeNameLink">ScoreManager</span></a>
  93 <ul>
  94 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/RNAStructScoreManager.html" title="class in compbio.data.sequence"><span class="typeNameLink">RNAStructScoreManager</span></a></li>
  95 </ul>
  96 </li>
  97 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html" title="class in compbio.data.sequence"><span class="typeNameLink">ScoreManager.ScoreHolder</span></a></li>
  98 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence"><span class="typeNameLink">SequenceUtil</span></a></li>
  99 <li type="circle">java.lang.Throwable (implements java.io.Serializable)
 100 <ul>
 101 <li type="circle">java.lang.Exception
 102 <ul>
 103 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/UnknownFileFormatException.html" title="class in compbio.data.sequence"><span class="typeNameLink">UnknownFileFormatException</span></a></li>
 104 </ul>
 105 </li>
 106 </ul>
 107 </li>
 108 </ul>
 109 </li>
 110 </ul>
 111 <h2 title="Enum Hierarchy">Enum Hierarchy</h2>
 112 <ul>
 113 <li type="circle">java.lang.Object
 114 <ul>
 115 <li type="circle">java.lang.Enum&lt;E&gt; (implements java.lang.Comparable&lt;T&gt;, java.io.Serializable)
 116 <ul>
 117 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence"><span class="typeNameLink">ConservationMethod</span></a></li>
 118 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/IUPredResult.html" title="enum in compbio.data.sequence"><span class="typeNameLink">IUPredResult</span></a></li>
 119 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/DisorderMethod.html" title="enum in compbio.data.sequence"><span class="typeNameLink">DisorderMethod</span></a></li>
 120 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/RNAStructReader.RNAOut.html" title="enum in compbio.data.sequence"><span class="typeNameLink">RNAStructReader.RNAOut</span></a></li>
 121 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/GlobProtResult.html" title="enum in compbio.data.sequence"><span class="typeNameLink">GlobProtResult</span></a></li>
 122 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/Program.html" title="enum in compbio.data.sequence"><span class="typeNameLink">Program</span></a></li>
 123 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/DisemblResult.html" title="enum in compbio.data.sequence"><span class="typeNameLink">DisemblResult</span></a></li>
 124 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/RNAStructReader.AlifoldResult.html" title="enum in compbio.data.sequence"><span class="typeNameLink">RNAStructReader.AlifoldResult</span></a></li>
 125 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/RNAStructReader.AlifoldLine.html" title="enum in compbio.data.sequence"><span class="typeNameLink">RNAStructReader.AlifoldLine</span></a></li>
 126 <li type="circle">compbio.data.sequence.<a href="../../../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence"><span class="typeNameLink">SMERFSConstraints</span></a></li>
 127 </ul>
 128 </li>
 129 </ul>
 130 </li>
 131 </ul>
 132 </div>
 133 <!-- ======= START OF BOTTOM NAVBAR ====== -->
 134 <div class="bottomNav"><a name="navbar.bottom">
 135 <!--   -->
 136 </a>
 137 <div class="skipNav"><a href="#skip.navbar.bottom" title="Skip navigation links">Skip navigation links</a></div>
 138 <a name="navbar.bottom.firstrow">
 139 <!--   -->
 140 </a>
 141 <ul class="navList" title="Navigation">
 142 <li><a href="../../../overview-summary.html">Overview</a></li>
 143 <li><a href="package-summary.html">Package</a></li>
 144 <li>Class</li>
 145 <li>Use</li>
 146 <li class="navBarCell1Rev">Tree</li>
 147 <li><a href="../../../deprecated-list.html">Deprecated</a></li>
 148 <li><a href="../../../index-files/index-1.html">Index</a></li>
 149 <li><a href="../../../help-doc.html">Help</a></li>
 150 </ul>
 151 </div>
 152 <div class="subNav">
 153 <ul class="navList">
 154 <li><a href="../../../compbio/data/msa/jaxws/package-tree.html">Prev</a></li>
 155 <li><a href="../../../compbio/engine/package-tree.html">Next</a></li>
 156 </ul>
 157 <ul class="navList">
 158 <li><a href="../../../index.html?compbio/data/sequence/package-tree.html" target="_top">Frames</a></li>
 159 <li><a href="package-tree.html" target="_top">No&nbsp;Frames</a></li>
 160 </ul>
 161 <ul class="navList" id="allclasses_navbar_bottom">
 162 <li><a href="../../../allclasses-noframe.html">All&nbsp;Classes</a></li>
 163 </ul>
 164 <div>
 165 <script type="text/javascript"><!--
 166   allClassesLink = document.getElementById("allclasses_navbar_bottom");
 167   if(window==top) {
 168     allClassesLink.style.display = "block";
 169   }
 170   else {
 171     allClassesLink.style.display = "none";
 172   }
 173   //-->
 174 </script>
 175 </div>
 176 <a name="skip.navbar.bottom">
 177 <!--   -->
 178 </a></div>
 179 <!-- ======== END OF BOTTOM NAVBAR ======= -->
 180 </body>
 181 </html>