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<!DOCTYPE HTML>
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<html lang>
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<head>
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<!-- Generated by javadoc (21) on Sat Oct 03 04:14:11 UTC 2026 -->
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<title>All Packages (SNT 5.0.20 API)</title>
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<meta name="viewport" content="width=device-width, initial-scale=1">
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<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
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<meta name="dc.created" content="2026-10-03">
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<meta name="description" content="package index">
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<meta name="generator" content="javadoc/AllPackagesIndexWriter">
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<link rel="stylesheet" type="text/css" href="stylesheet.css" title="Style">
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<link rel="stylesheet" type="text/css" href="script-dir/jquery-ui.min.css" title="Style">
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<script type="text/javascript" src="script.js"></script>
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<script type="text/javascript" src="script-dir/jquery-3.7.1.min.js"></script>
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<script type="text/javascript" src="script-dir/jquery-ui.min.js"></script>
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</head>
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<body class="all-packages-index-page">
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<script type="text/javascript">var pathtoroot = "./";
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loadScripts(document, 'script');</script>
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<noscript>
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<div>JavaScript is disabled on your browser.</div>
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</noscript>
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<div class="flex-box">
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<header role="banner" class="flex-header">
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<nav role="navigation">
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<!-- ========= START OF TOP NAVBAR ======= -->
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<div class="top-nav" id="navbar-top"><button id="navbar-toggle-button" aria-controls="navbar-top" aria-expanded="false" aria-label="Toggle navigation links"><span class="nav-bar-toggle-icon">&nbsp;</span><span class="nav-bar-toggle-icon">&nbsp;</span><span class="nav-bar-toggle-icon">&nbsp;</span></button>
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<div class="skip-nav"><a href="#skip-navbar-top" title="Skip navigation links">Skip navigation links</a></div>
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<ul id="navbar-top-firstrow" class="nav-list" title="Navigation">
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<li><a href="index.html">Overview</a></li>
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<li>Package</li>
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<li>Class</li>
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<li>Use</li>
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<li><a href="overview-tree.html">Tree</a></li>
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<li><a href="deprecated-list.html">Deprecated</a></li>
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<li><a href="index-all.html">Index</a></li>
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<li><a href="help-doc.html#all-packages">Help</a></li>
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</ul>
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</div>
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<div class="sub-nav">
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<div id="navbar-sub-list"></div>
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<div class="nav-list-search"><a href="search.html">SEARCH</a>
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<input type="text" id="search-input" disabled placeholder="Search">
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<input type="reset" id="reset-button" disabled value="reset">
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</div>
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</div>
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<!-- ========= END OF TOP NAVBAR ========= -->
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<span class="skip-nav" id="skip-navbar-top"></span></nav>
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</header>
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<div class="flex-content">
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<main role="main">
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<div class="header">
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<h1 title="All&amp;nbsp;Packages" class="title">All&nbsp;Packages</h1>
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</div>
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<div class="caption"><span>Package Summary</span></div>
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<div class="summary-table two-column-summary">
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<div class="table-header col-first">Package</div>
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<div class="table-header col-last">Description</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/package-summary.html">sc.fiji.snt</a></div>
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<div class="col-last even-row-color">
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<div class="block">SNT core classes</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/analysis/package-summary.html">sc.fiji.snt.analysis</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Analysis of <a href="sc/fiji/snt/Tree.html" title="class in sc.fiji.snt"><code>Tree</code></a>s.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/analysis/curation/package-summary.html">sc.fiji.snt.analysis.curation</a></div>
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<div class="col-last even-row-color">
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<div class="block">Classes for curation of reconstructions, as implemented by the "Curation Assistant".</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/analysis/detection/package-summary.html">sc.fiji.snt.analysis.detection</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Feature detectors for traced paths.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/analysis/graph/package-summary.html">sc.fiji.snt.analysis.graph</a></div>
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<div class="col-last even-row-color">
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<div class="block">Classes for handling neuronal reconstructions as graphs</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/analysis/growth/package-summary.html">sc.fiji.snt.analysis.growth</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Classes for growth analysis of neurites across time</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/analysis/sholl/package-summary.html">sc.fiji.snt.analysis.sholl</a></div>
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<div class="col-last even-row-color">
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<div class="block">Sholl analysis of Images, pre-sampled data and <a href="sc/fiji/snt/Tree.html" title="class in sc.fiji.snt"><code>Tree</code></a>s.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/analysis/sholl/gui/package-summary.html">sc.fiji.snt.analysis.sholl.gui</a></div>
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<div class="col-last odd-row-color">
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<div class="block">GUI customizations (image overlays, plots, etc.) required for Sholl Analysis.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/analysis/sholl/math/package-summary.html">sc.fiji.snt.analysis.sholl.math</a></div>
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<div class="col-last even-row-color">
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<div class="block">Statistical analysis of Sholl data</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/analysis/sholl/parsers/package-summary.html">sc.fiji.snt.analysis.sholl.parsers</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Parsers to retrieve Sholl profiles from multiple sources (2D/3D images,
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reconstructions, and tables)</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/annotation/package-summary.html">sc.fiji.snt.annotation</a></div>
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<div class="col-last even-row-color">
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<div class="block">Classes handling neuropil annotations and atlases metadata.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/event/package-summary.html">sc.fiji.snt.event</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Utilities for TrakEM2 interaction</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/filter/package-summary.html">sc.fiji.snt.filter</a></div>
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<div class="col-last even-row-color">
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<div class="block">Filters for detection of tube-like structures</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/gui/package-summary.html">sc.fiji.snt.gui</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Customizations and commands for SNT's GUI.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/gui/cmds/package-summary.html">sc.fiji.snt.gui.cmds</a></div>
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<div class="col-last even-row-color">
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<div class="block">Scijava-based GUIs for SNT built-in commands.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/hyperpanes/package-summary.html">sc.fiji.snt.hyperpanes</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Classes implementing SNT's XY, ZY, and XZ canvases.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/io/package-summary.html">sc.fiji.snt.io</a></div>
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<div class="col-last even-row-color">
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<div class="block">Classes for importing reconstructions into SNT.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/plugin/package-summary.html">sc.fiji.snt.plugin</a></div>
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<div class="col-last odd-row-color">
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<div class="block">SNT add-ons as IJ2 commands</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/plugin/ij1/package-summary.html">sc.fiji.snt.plugin.ij1</a></div>
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<div class="col-last even-row-color">
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<div class="block">SNT add-ons as legacy ("IJ1") plugins.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/seed/package-summary.html">sc.fiji.snt.seed</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Classes for <a href="https://imagej.net/plugins/snt/seeds">Seed Tracing</a>.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/tracing/package-summary.html">sc.fiji.snt.tracing</a></div>
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<div class="col-last even-row-color">
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<div class="block">Path-finding algorithms for interactive neuron tracing.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/tracing/artist/package-summary.html">sc.fiji.snt.tracing.artist</a></div>
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<div class="col-last odd-row-color">
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<div class="block"><i>Artist</i> classes provide visual feedback for tracing algorithm execution.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/tracing/auto/package-summary.html">sc.fiji.snt.tracing.auto</a></div>
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<div class="col-last even-row-color">
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<div class="block">Automatic neuron tracing algorithms that reconstruct complete neuronal
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morphologies from images without user interaction.</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/tracing/auto/gwdt/package-summary.html">sc.fiji.snt.tracing.auto.gwdt</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Storage backends for the Gray-Weighted Distance Transform (GWDT) tracing
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algorithm.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/tracing/cost/package-summary.html">sc.fiji.snt.tracing.cost</a></div>
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<div class="col-last even-row-color">
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<div class="block">Cost function implementations for classes implementing <a href="sc/fiji/snt/tracing/SearchInterface.html" title="interface in sc.fiji.snt.tracing"><code>SearchInterface</code></a></div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/tracing/heuristic/package-summary.html">sc.fiji.snt.tracing.heuristic</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Heuristic implementations for classes implementing <a href="sc/fiji/snt/tracing/SearchInterface.html" title="interface in sc.fiji.snt.tracing"><code>SearchInterface</code></a></div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/tracing/image/package-summary.html">sc.fiji.snt.tracing.image</a></div>
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<div class="col-last even-row-color">
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<div class="block">Data structures used to keep track of encountered nodes during image-based searches for classes implementing
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<a href="sc/fiji/snt/tracing/SearchInterface.html" title="interface in sc.fiji.snt.tracing"><code>SearchInterface</code></a></div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/util/package-summary.html">sc.fiji.snt.util</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Miscellaneous SNT utilities, including classes defining reconstruction nodes.</div>
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</div>
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<div class="col-first even-row-color"><a href="sc/fiji/snt/viewer/package-summary.html">sc.fiji.snt.viewer</a></div>
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<div class="col-last even-row-color">
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<div class="block">Visualization of reconstructions</div>
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</div>
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<div class="col-first odd-row-color"><a href="sc/fiji/snt/viewer/geditor/package-summary.html">sc.fiji.snt.viewer.geditor</a></div>
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<div class="col-last odd-row-color">
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<div class="block">Classes implementing SNT's Graph Viewer</div>
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</div>
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</div>
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</main>
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<footer role="contentinfo">
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<hr>
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<p class="legal-copy"><small>Copyright &#169; 2010&#x2013;2026 <a href="https://fiji.sc">Fiji</a>. All rights reserved.</small></p>
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</footer>
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</div>
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</div>
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</body>
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</html>

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