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<!DOCTYPE HTML> <html lang="en"> <head>  <title>Overview (JChem Base API documentation (c) 1998-2024 Chemaxon Ltd.)</title> <meta name="viewport" content="width=device-width, initial-scale=1"> <meta http-equiv="Content-Type" content="text/html; charset=UTF-8"> <meta name="description" content="package index"> <meta name="generator" content="javadoc/PackageIndexWriter"> <link rel="stylesheet" type="text/css" href="stylesheet.css" title="Style"> <link rel="stylesheet" type="text/css" href="script-dir/jquery-ui.min.css" title="Style"> <link rel="stylesheet" type="text/css" href="jquery-ui.overrides.css" title="Style"> <script type="text/javascript" src="script.js"></script> <script type="text/javascript" src="script-dir/jquery-3.6.1.min.js"></script> <script type="text/javascript" src="script-dir/jquery-ui.min.js"></script> </head> <body class="package-index-page"> <script type="text/javascript">var pathtoroot = "./"; loadScripts(document, 'script');</script> <noscript> <div>JavaScript is 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role="main"> <div class="header"> <h1 class="title">JChem Base API documentation (c) 1998-2024 Chemaxon Ltd.</h1> </div> <div id="all-packages-table"> <div class="caption"><span>Packages</span></div> <div class="summary-table two-column-summary"> <div class="table-header col-first">Package</div> <div class="table-header col-last">Description</div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/package-summary.html">chemaxon.calculations</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains chemical computation modules.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/bbb/package-summary.html">chemaxon.calculations.bbb</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">BBB score calculator.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/cip/package-summary.html">chemaxon.calculations.cip</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/clean/package-summary.html">chemaxon.calculations.clean</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/cnsmpo/package-summary.html">chemaxon.calculations.cnsmpo</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">CNS MPO score calculator.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/dipole/package-summary.html">chemaxon.calculations.dipole</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/hydrogenize/package-summary.html">chemaxon.calculations.hydrogenize</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/nmr/package-summary.html">chemaxon.calculations.nmr</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/nmr/io/package-summary.html">chemaxon.calculations.nmr.io</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/pka/package-summary.html">chemaxon.calculations.pka</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculations/stereo/package-summary.html">chemaxon.calculations.stereo</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/calculator/package-summary.html">chemaxon.calculator</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/checkers/package-summary.html">chemaxon.checkers</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Structure checkers can be used to filter drawing mistakes or special structural elements.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/checkers/result/package-summary.html">chemaxon.checkers.result</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">This package is used to identify problems found in molecules.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/checkers/runner/package-summary.html">chemaxon.checkers.runner</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">This package supports the automatic running of structure checkers.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/checkers/runner/configuration/reader/package-summary.html">chemaxon.checkers.runner.configuration.reader</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Extension package of the automatic runner functionality.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/checkers/util/package-summary.html">chemaxon.checkers.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/clustering/package-summary.html">chemaxon.clustering</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides classes for clustering.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/clustering/adapter/package-summary.html">chemaxon.clustering.adapter</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/clustering/libmcs/package-summary.html">chemaxon.clustering.libmcs</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/clustering/libmcs/adapter/package-summary.html">chemaxon.clustering.libmcs.adapter</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Adapter to expose <a href="chemaxon/clustering/libmcs/LibraryMcs.html" title="class in chemaxon.clustering.libmcs"><code>LibraryMcs</code></a> clustering through the (<code>com.chemaxon.clustering</code>) API.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/common/swing/io/output/package-summary.html">chemaxon.common.swing.io.output</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/common/util/package-summary.html">chemaxon.common.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides general utility classes.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/core/package-summary.html">chemaxon.core</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/core/calculations/stereo/package-summary.html">chemaxon.core.calculations.stereo</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/core/calculations/valencecheck/package-summary.html">chemaxon.core.calculations.valencecheck</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/core/util/package-summary.html">chemaxon.core.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/descriptors/package-summary.html">chemaxon.descriptors</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes for virtual screening using Molecular Descriptors.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/descriptors/scalars/package-summary.html">chemaxon.descriptors.scalars</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/fixers/package-summary.html">chemaxon.fixers</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Structure fixers can be used to fix problems identified by structure checker instances.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/formats/package-summary.html">chemaxon.formats</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides miscellaneous utility classes for converting between various molecule file formats, importing structures, and compressing Molfiles.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/formats/factory/package-summary.html">chemaxon.formats.factory</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/formats/recognizer/package-summary.html">chemaxon.formats.recognizer</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides classes to recognize files of various file formats.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/jchem/db/package-summary.html">chemaxon.jchem.db</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides classes for database operations.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/jchem/file/package-summary.html">chemaxon.jchem.file</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/jchem/version/package-summary.html">chemaxon.jchem.version</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/jep/package-summary.html">chemaxon.jep</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Chemical Terms Evaluator classes.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/jep/context/package-summary.html">chemaxon.jep.context</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Specific chemical terms evaluation contexts.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/license/package-summary.html">chemaxon.license</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes related licenses, license handling, validating, GUI and documentation.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/package-summary.html">chemaxon.marvin</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains utility classes for rendering molecules.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/alignment/package-summary.html">chemaxon.marvin.alignment</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">The 3D molecular alignment package that can be used to align two or more 3D molecules onto each other.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/alignment/atrop/package-summary.html">chemaxon.marvin.alignment.atrop</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Utilities for <code>AtropIsomerDetector</code>.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/beans/package-summary.html">chemaxon.marvin.beans</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides bean classes for creating Marvin based user interface.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/calculations/package-summary.html">chemaxon.marvin.calculations</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides specific plugin, plugin loader and table form output implementations.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/collecting/package-summary.html">chemaxon.marvin.collecting</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/common/package-summary.html">chemaxon.marvin.common</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains a class for handling user settings.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/io/package-summary.html">chemaxon.marvin.io</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides classes for molecule import and export through data streams.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/io/fieldaccess/package-summary.html">chemaxon.marvin.io.fieldaccess</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/io/formats/package-summary.html">chemaxon.marvin.io.formats</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Core package of any import/export module.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/io/formats/mdl/package-summary.html">chemaxon.marvin.io.formats.mdl</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Import and export modules for MDL Molfile, SDfile, RDfile, Rxnfile and (Chemaxon) compressed molfile.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/io/formats/smiles/package-summary.html">chemaxon.marvin.io.formats.smiles</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/modules/datatransfer/package-summary.html">chemaxon.marvin.modules.datatransfer</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Since Marvin 5.3 this package contains the clipboard handler infrastructure in Marvin.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/plugin/package-summary.html">chemaxon.marvin.plugin</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains the classes responsible for calculator plugin loading, parameter setting, running and displaying mechanism.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/plugin/concurrent/package-summary.html">chemaxon.marvin.plugin.concurrent</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes to achieve concurrent processing of calculator plugins.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/plugin/gui/package-summary.html">chemaxon.marvin.plugin.gui</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Calculator plugin common GUI classes.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/package-summary.html">chemaxon.marvin.services</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Marvin Services provides API and support for accessing remote services from Marvin Sketch and other tools.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/httpservice/package-summary.html">chemaxon.marvin.services.httpservice</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/json/package-summary.html">chemaxon.marvin.services.json</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/localservice/package-summary.html">chemaxon.marvin.services.localservice</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/soap/package-summary.html">chemaxon.marvin.services.soap</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/services/xmlrpcservice/package-summary.html">chemaxon.marvin.services.xmlrpcservice</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/sketch/package-summary.html">chemaxon.marvin.sketch</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains the sketcher's core classes and various sketching modes.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/sketch/swing/modules/documentstyle/package-summary.html">chemaxon.marvin.sketch.swing.modules.documentstyle</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/swing/package-summary.html">chemaxon.marvin.swing</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/uif/dialog/package-summary.html">chemaxon.marvin.uif.dialog</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/util/package-summary.html">chemaxon.marvin.util</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains some utilities for example for molecule cleaning and Swing.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/view/package-summary.html">chemaxon.marvin.view</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Control records in MarvinView.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/marvin/view/swing/package-summary.html">chemaxon.marvin.view.swing</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Swing support for MarvinView tables.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/naming/package-summary.html">chemaxon.naming</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Name to Structure conversion.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/naming/document/package-summary.html">chemaxon.naming.document</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Document to Structure (D2S) conversion.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/naming/document/annotate/package-summary.html">chemaxon.naming.document.annotate</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/nfunk/jep/function/package-summary.html">chemaxon.nfunk.jep.function</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/pharmacophore/package-summary.html">chemaxon.pharmacophore</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes for pharmacophore point perception, pharmacophore fingerprint generation and pharmacophore dissimilarity calculations.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/reaction/package-summary.html">chemaxon.reaction</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes for reaction processing related tasks.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/sss/package-summary.html">chemaxon.sss</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains packages for structure search and screening.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/sss/formula/package-summary.html">chemaxon.sss.formula</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/sss/screen/package-summary.html">chemaxon.sss.screen</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Classes for screeening.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/sss/search/package-summary.html">chemaxon.sss.search</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides structural search capabilities.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/sss/search/options/package-summary.html">chemaxon.sss.search.options</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/package-summary.html">chemaxon.standardizer</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains packages for structure standardization.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/actions/package-summary.html">chemaxon.standardizer.actions</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains basic standardizer actions.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/advancedactions/package-summary.html">chemaxon.standardizer.advancedactions</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains advanced standardizer actions.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/concurrent/package-summary.html">chemaxon.standardizer.concurrent</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for concurrent execution of standardization.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/configuration/package-summary.html">chemaxon.standardizer.configuration</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for handling configurations of standardizer.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/configuration/reader/package-summary.html">chemaxon.standardizer.configuration.reader</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for handling configuration deserialization.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/standardizer/runner/package-summary.html">chemaxon.standardizer.runner</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for executing standardization based on a configuration.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/struc/package-summary.html">chemaxon.struc</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides classes for implementing and manipulating chemical structures.<br> Serialization of these classes is `standardized' in Marvin 5.3.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/struc/graphics/package-summary.html">chemaxon.struc.graphics</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains graphics MDocument elements.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/struc/prop/package-summary.html">chemaxon.struc.prop</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Utility classes that represent molecular properties and convert molecular property Strings to values and vice versa.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/struc/sgroup/package-summary.html">chemaxon.struc.sgroup</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">S-group related classes and interfaces.<br> Serialization of the classes is `standardized' in Marvin 3.1.4.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/struc/stereo/package-summary.html">chemaxon.struc.stereo</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/structurechecker/factory/package-summary.html">chemaxon.structurechecker.factory</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/util/package-summary.html">chemaxon.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/util/concurrent/marvin/package-summary.html">chemaxon.util.concurrent.marvin</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/util/iterator/package-summary.html">chemaxon.util.iterator</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides iterator classes for molecules and their components.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="chemaxon/util/progress/package-summary.html">chemaxon.util.progress</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Common components of Calculator APIs.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/admet/package-summary.html">com.chemaxon.calculations.admet</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/cli/package-summary.html">com.chemaxon.calculations.cli</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/elemanal/package-summary.html">com.chemaxon.calculations.elemanal</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">API of the elemental analysis functionality.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/elemanal/factory/package-summary.html">com.chemaxon.calculations.elemanal.factory</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/gui/package-summary.html">com.chemaxon.calculations.gui</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/solubility/package-summary.html">com.chemaxon.calculations.solubility</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/package-summary.html">com.chemaxon.calculations.stereoanal</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">API of the Stereo Analysis Plugin.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/filters/package-summary.html">com.chemaxon.calculations.stereoanal.filters</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Core filter classes.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/filters/atrop/package-summary.html">com.chemaxon.calculations.stereoanal.filters.atrop</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Atrop stereo filter implementations.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/filters/axial/package-summary.html">com.chemaxon.calculations.stereoanal.filters.axial</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Axial stereo filter implementations.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/filters/cistrans/package-summary.html">com.chemaxon.calculations.stereoanal.filters.cistrans</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Cis-trans stereo filter implementations.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/filters/tetrahedral/package-summary.html">com.chemaxon.calculations.stereoanal.filters.tetrahedral</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Tetrahedral stereo filter implementations.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoanal/stereocenters/package-summary.html">com.chemaxon.calculations.stereoanal.stereocenters</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Stereocenter implementations of Stereo Analysis API.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/calculations/stereoisomers/package-summary.html">com.chemaxon.calculations.stereoisomers</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/common/package-summary.html">com.chemaxon.clustering.common</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Common components of clustering related APIs.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/framework/package-summary.html">com.chemaxon.clustering.framework</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Hierarchic structural framework based clustering.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/singlelinkage/package-summary.html">com.chemaxon.clustering.singlelinkage</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Single linkage clustering algorithm.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/sphex/package-summary.html">com.chemaxon.clustering.sphex</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Sphere exclusion clustering algorithm.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/util/package-summary.html">com.chemaxon.clustering.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Clustering related utilities.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/clustering/wards/package-summary.html">com.chemaxon.clustering.wards</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Ward's minimum variance implemented as a generic agglomerative hierarchical clustering algorithm.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/common/annotations/package-summary.html">com.chemaxon.common.annotations</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Provides annotations for Chemaxon classes.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/alignment/package-summary.html">com.chemaxon.descriptors.alignment</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">3D flexible alignment based molecular shape similarity calculation.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/common/package-summary.html">com.chemaxon.descriptors.common</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Unguarded descriptor handling.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/db/package-summary.html">com.chemaxon.descriptors.db</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Interfaces for database import/export.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/fingerprints/cfp/package-summary.html">com.chemaxon.descriptors.fingerprints.cfp</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">API of the Chemaxon hashed fingerprint family molecular descriptors.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/fingerprints/ecfp/package-summary.html">com.chemaxon.descriptors.fingerprints.ecfp</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">API of the ECFP fingerprint family molecular descriptors.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/fingerprints/maccs/package-summary.html">com.chemaxon.descriptors.fingerprints.maccs</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">ChemAxon implementation of the MACCS 166 bit fingerprints.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/fingerprints/pf2d/package-summary.html">com.chemaxon.descriptors.fingerprints.pf2d</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">API of the 2D pharmacophore fingerprint family molecular descriptors.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/metrics/package-summary.html">com.chemaxon.descriptors.metrics</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Common descriptor comparison metrics.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/vectors/binary/package-summary.html">com.chemaxon.descriptors.vectors.binary</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Generic binary vector descriptors.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/descriptors/vectors/floats/package-summary.html">com.chemaxon.descriptors.vectors.floats</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Generic floating point vector descriptors.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/mapper/package-summary.html">com.chemaxon.mapper</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/overlap/io/package-summary.html">com.chemaxon.overlap.io</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/package-summary.html">com.chemaxon.search</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Tools for chemical search.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/mcs/package-summary.html">com.chemaxon.search.mcs</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for finding the <i>maximum common substructure</i> (MCS) of molecular structures.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/mcs/buildup/package-summary.html">com.chemaxon.search.mcs.buildup</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains MCS algorithm implementation based on the "build up" method.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/mcs/maxclique/package-summary.html">com.chemaxon.search.mcs.maxclique</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains MCS algorithm implementation based on the "maximum clique" method.</div> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/mcs/upperbound/package-summary.html">com.chemaxon.search.mcs.upperbound</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">Contains classes for calculating upper bound estimations for <i>maximum common substructure</i> (MCS) search.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/transformation/package-summary.html">com.chemaxon.search.transformation</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/transformation/transformers/package-summary.html">com.chemaxon.search.transformation.transformers</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/search/transformation/util/package-summary.html">com.chemaxon.search.transformation.util</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> <div class="col-first odd-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/util/concurrent/package-summary.html">com.chemaxon.util.concurrent</a></div> <div class="col-last odd-row-color all-packages-table all-packages-table-tab1"> <div class="block">This package contains an <a href="https://docs.oracle.com/en/java/javase/11/docs/api/java.base/java/util/Iterator.html" title="class or interface in java.util" class="external-link"><code>Iterator</code></a> wrapper that can be used to perform calculations simultaneously on multiple elements provided by the wrapped iterator, and returns the calculation results while preserving the original order of elements.</div> </div> <div class="col-first even-row-color all-packages-table all-packages-table-tab1"><a href="com/chemaxon/version/package-summary.html">com.chemaxon.version</a></div> <div class="col-last even-row-color all-packages-table all-packages-table-tab1"> </div> </div> </div> </main> </div> </div> </body> </html>