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| author | deepakjadmin |
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| date | Wed, 20 Jan 2016 11:55:01 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/mayachemtools/docs/modules/html/CyclesDetection.html Wed Jan 20 11:55:01 2016 -0500 @@ -0,0 +1,124 @@ +<html> +<head> +<title>MayaChemTools:Documentation:Graph::CyclesDetection.pm</title> +<meta http-equiv="content-type" content="text/html;charset=utf-8"> +<link rel="stylesheet" type="text/css" href="../../css/MayaChemTools.css"> +</head> +<body leftmargin="20" rightmargin="20" topmargin="10" bottommargin="10"> +<br/> +<center> +<a href="http://www.mayachemtools.org" title="MayaChemTools Home"><img src="../../images/MayaChemToolsLogo.gif" border="0" alt="MayaChemTools"></a> +</center> +<br/> +<div class="DocNav"> +<table width="100%" border=0 cellpadding=0 cellspacing=2> +<tr align="left" valign="top"><td width="33%" align="left"><a href="./TopologicalPharmacophoreAtomTripletsFingerprints.html" title="TopologicalPharmacophoreAtomTripletsFingerprints.html">Previous</a> <a href="./index.html" title="Table of Contents">TOC</a> <a href="./GraphMatrix.html" title="GraphMatrix.html">Next</a></td><td width="34%" align="middle"><strong>Graph::CyclesDetection.pm</strong></td><td width="33%" align="right"><a href="././code/CyclesDetection.html" title="View source code">Code</a> | <a href="./../pdf/CyclesDetection.pdf" title="PDF US Letter Size">PDF</a> | <a href="./../pdfgreen/CyclesDetection.pdf" title="PDF US Letter Size with narrow margins: www.changethemargins.com">PDFGreen</a> | <a href="./../pdfa4/CyclesDetection.pdf" title="PDF A4 Size">PDFA4</a> | <a href="./../pdfa4green/CyclesDetection.pdf" title="PDF A4 Size with narrow margins: www.changethemargins.com">PDFA4Green</a></td></tr> +</table> +</div> +<p> +</p> +<h2>NAME</h2> +<p>CyclesDetection</p> +<p> +</p> +<h2>SYNOPSIS</h2> +<p>use Graph::CyclesDetection;</p> +<p>use Graph::CyclesDetection qw(:all);</p> +<p> +</p> +<h2>DESCRIPTION</h2> +<p><strong>CyclesDetection</strong> class provides the following methods:</p> +<p> <a href="#new">new</a>, <a href="#copy">Copy</a>, <a href="#detectcycles">DetectCycles</a>, <a href="#detectcyclesusingcollapsingpathgraphmethodology">DetectCyclesUsingCollapsingPathGraphMethodology</a> +, <a href="#getallcyclicpaths">GetAllCyclicPaths</a>, <a href="#getindependentcyclicpaths">GetIndependentCyclicPaths</a>, <a href="#stringifycyclesdetection">StringifyCyclesDetection</a> +</p><p>Cycles in a <strong>Graph</strong> are detected using collapsing path graph [Ref 31] +methodology.</p> +<p> +</p> +<h2>METHODS</h2> +<dl> +<dt><strong><a name="new" class="item"><strong>new</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + $NewCyclesDetection = new Graph::CyclesDetection($Graph);</div> +<p>Using specified <em>Graph</em>, <strong>new</strong> method creates a new <strong>CyclesDetection</strong> object and returns +newly created <strong>CyclesDetection</strong> object.</p> +</dd> +<dt><strong><a name="copy" class="item"><strong>Copy</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + $NewCyclesDetection = $CyclesDetection->Copy();</div> +<p>Copies <em>CyclesDetection</em> and its associated data using <strong>Storable::dclone</strong> and returns a new +<strong>CyclesDetection</strong> object.</p> +</dd> +<dt><strong><a name="detectcycles" class="item"><strong>DetectCycles</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + $CyclesDetection->DetectCycles();</div> +<p>Detects all cycles in a graph and returns <em>CyclesDetection</em>.</p> +</dd> +<dt><strong><a name="detectcyclesusingcollapsingpathgraphmethodology" class="item"><strong>DetectCyclesUsingCollapsingPathGraphMethodology</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + $CyclesDetection->DetectCyclesUsingCollapsingPathGraphMethodology();</div> +<p>Detects all cycles in a graph using collapsing path graph [Ref 31] methodology +and returns <em>CyclesDetection</em>.</p> +</dd> +<dt><strong><a name="getallcyclicpaths" class="item"><strong>GetAllCyclicPaths</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + @AllCyclicPaths = $CyclesDetection->GetAllCyclicPaths(); +<br/> $NumOfAllCyclicPaths = $CyclesDetection->GetAllCyclicPaths();</div> +<p>Returns an array containing references to all cyclic paths identified during cycles +detection. In scalar text, number of cycles is returned.</p> +</dd> +<dt><strong><a name="getindependentcyclicpaths" class="item"><strong>GetIndependentCyclicPaths</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + @IndependentCyclicPaths = $CyclesDetection->GetAllCyclicPaths(); +<br/> $NumOfIndependentCyclicPaths = $CyclesDetection->GetAllCyclicPaths();</div> +<p>Returns an array containing references to independent cyclic paths identified during cycles +detection. In scalar text, number of cycles is returned.</p> +<p>A set of independent cycles identified during cycles detection doesn't correspond to the basis set of +rings or smallest set of smallest rings (SSSR) [ Refs 29-30 ]; instead, set of cycles indentified +as independent cycles simply correpond to cycles which contain no other cycle as their +subcycles and can't be described as a linear combination of smaller cycles. And it also happens +to contain all the rings in basis set of rings and SSSR. In other words, it's a superset of a basis set +of cycles and SSSR. For example, six four membered cycles are indentified for cubane, which is one +more than the basis set of cycles.</p> +</dd> +<dt><strong><a name="stringifycyclesdetection" class="item"><strong>StringifyCyclesDetection</strong></a></strong></dt> +<dd> +<div class="OptionsBox"> + $String = $CyclesDetection->StringifyCyclesDetection();</div> +<p>Returns a string containing information about <em>CyclesDetection</em> object.</p> +</dd> +</dl> +<p> +</p> +<h2>AUTHOR</h2> +<p><a href="mailto:msud@san.rr.com">Manish Sud</a></p> +<p> +</p> +<h2>SEE ALSO</h2> +<p><a href="./Graph.html">Graph.pm</a>, <a href="./Path.html">Path.pm</a>, <a href="./PathGraph.html">PathGraph.pm</a> +</p> +<p> +</p> +<h2>COPYRIGHT</h2> +<p>Copyright (C) 2015 Manish Sud. All rights reserved.</p> +<p>This file is part of MayaChemTools.</p> +<p>MayaChemTools is free software; you can redistribute it and/or modify it under +the terms of the GNU Lesser General Public License as published by the Free +Software Foundation; either version 3 of the License, or (at your option) +any later version.</p> +<p> </p><p> </p><div class="DocNav"> +<table width="100%" border=0 cellpadding=0 cellspacing=2> +<tr align="left" valign="top"><td width="33%" align="left"><a href="./TopologicalPharmacophoreAtomTripletsFingerprints.html" title="TopologicalPharmacophoreAtomTripletsFingerprints.html">Previous</a> <a href="./index.html" title="Table of Contents">TOC</a> <a href="./GraphMatrix.html" title="GraphMatrix.html">Next</a></td><td width="34%" align="middle"><strong>March 29, 2015</strong></td><td width="33%" align="right"><strong>Graph::CyclesDetection.pm</strong></td></tr> +</table> +</div> +<br /> +<center> +<img src="../../images/h2o2.png"> +</center> +</body> +</html>