List of Extensions

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data-toc-headings="h1,h2,h3,h4,h5,h6"></ul> </div> </section>  <div class="container"> <header class="major special"> <h1>List of Extensions</h1> </header> </div>   <section id="page" class="main style1"> <div class="container"> <div class="box alt"></div> <div id="content" class="page-content"> <style> #categories-filter { margin-bottom: 2em; margin-top: -2em; } #filter-checkboxes { column-width: 13em; } #list-of-extensions { column-width: 16em; list-style: none; } #list-of-extensions img { vertical-align: middle; } #list-of-extensions li { padding-bottom: 1em; align-items: center; line-height: 0.9em; overflow: hidden; white-space: nowrap; } #list-of-extensions li div { display: inline-block; vertical-align: middle; padding-left: 0.3em; } #list-of-extensions .categories { font-size: 0.7em; white-space: normal; } </style> <details id="categories-filter" class="shadowed-box"> <summary><b>Categories filter</b></summary> <div id="filter-container"> <div id="filter-buttons"> <button onclick="toggleAllCategories(true, true)">Select all</button> <button onclick="toggleAllCategories(false, true)">Select none</button> <input type="radio" id="filter-mode-all" name="mode" value="all" onchange="refreshVisibleItems()" /> <label for="filter-mode-all">All</label> <input type="radio" id="filter-mode-any" name="mode" value="any" checked="" onchange="refreshVisibleItems()" /> <label for="filter-mode-any">Any</label> </div> <div id="filter-checkboxes"><input type="checkbox" id="toggle-3d" name="3D" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-3d">3D</label><br /><input type="checkbox" id="toggle-analysis" name="Analysis" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-analysis">Analysis</label><br /><input type="checkbox" id="toggle-annotation" name="Annotation" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-annotation">Annotation</label><br /><input type="checkbox" id="toggle-automation" name="Automation" checked="" 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onchange="refreshVisibleItems()" /> <label for="toggle-macro">Macro</label><br /><input type="checkbox" id="toggle-macroextensions" name="MacroExtensions" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-macroextensions">MacroExtensions</label><br /><input type="checkbox" id="toggle-mathematical-morphology" name="Mathematical Morphology" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-mathematical-morphology">Mathematical Morphology</label><br /><input type="checkbox" id="toggle-microscopy" name="Microscopy" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-microscopy">Microscopy</label><br /><input type="checkbox" id="toggle-microtubules" name="Microtubules" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-microtubules">Microtubules</label><br /><input type="checkbox" id="toggle-montage" name="Montage" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-montage">Montage</label><br /><input 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checked="" onchange="refreshVisibleItems()" /> <label for="toggle-optic-flow">Optic Flow</label><br /><input type="checkbox" id="toggle-particle-analysis" name="Particle Analysis" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-particle-analysis">Particle Analysis</label><br /><input type="checkbox" id="toggle-pattern-recognition" name="Pattern Recognition" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-pattern-recognition">Pattern Recognition</label><br /><input type="checkbox" id="toggle-perfusion" name="Perfusion" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-perfusion">Perfusion</label><br /><input type="checkbox" id="toggle-photogrammetry" name="Photogrammetry" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-photogrammetry">Photogrammetry</label><br /><input type="checkbox" id="toggle-photography" name="Photography" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-photography">Photography</label><br /><input type="checkbox" id="toggle-plotting" name="Plotting" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-plotting">Plotting</label><br /><input type="checkbox" id="toggle-projection" name="Projection" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-projection">Projection</label><br /><input type="checkbox" id="toggle-registration" name="Registration" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-registration">Registration</label><br /><input type="checkbox" id="toggle-scijava" name="SciJava" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-scijava">SciJava</label><br /><input type="checkbox" id="toggle-scripting" name="Scripting" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-scripting">Scripting</label><br /><input type="checkbox" id="toggle-segmentation" name="Segmentation" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-segmentation">Segmentation</label><br /><input type="checkbox" id="toggle-skeleton" name="Skeleton" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-skeleton">Skeleton</label><br /><input type="checkbox" id="toggle-stacks" name="Stacks" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-stacks">Stacks</label><br /><input type="checkbox" id="toggle-stitching" name="Stitching" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-stitching">Stitching</label><br /><input type="checkbox" id="toggle-super-resolution" name="Super-resolution" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-super-resolution">Super-resolution</label><br /><input type="checkbox" id="toggle-time-signal-analysis" name="Time Signal Analysis" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-time-signal-analysis">Time Signal Analysis</label><br /><input type="checkbox" id="toggle-tissue" name="Tissue" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-tissue">Tissue</label><br /><input type="checkbox" id="toggle-track-analysis" name="Track analysis" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-track-analysis">Track analysis</label><br /><input type="checkbox" id="toggle-tracking" name="Tracking" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-tracking">Tracking</label><br /><input type="checkbox" id="toggle-trakem2" name="TrakEM2" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-trakem2">TrakEM2</label><br /><input type="checkbox" id="toggle-transform" name="Transform" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-transform">Transform</label><br /><input type="checkbox" id="toggle-tutorials" name="Tutorials" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-tutorials">Tutorials</label><br /><input type="checkbox" id="toggle-uncategorized" name="Uncategorized" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-uncategorized">Uncategorized</label><br /><input type="checkbox" id="toggle-unmaintained" name="Unmaintained" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-unmaintained">Unmaintained</label><br /><input type="checkbox" id="toggle-user-interface" name="User Interface" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-user-interface">User Interface</label><br /><input type="checkbox" id="toggle-utilities" name="Utilities" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-utilities">Utilities</label><br /><input type="checkbox" id="toggle-visualization" name="Visualization" checked="" onchange="refreshVisibleItems()" /> <label for="toggle-visualization">Visualization</label><br /> </div> </div> </details> <ul id="list-of-extensions"> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/animated-gif">Save as animated gif</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export category-scijava category-ome"> <img src="/media/icons/bio-formats.png" height="25" /> <div> <a href="/formats/bio-formats">Bio-Formats</a><br /> <span class="categories">Import-Export, SciJava, OME</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/dicom">DICOM</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/fib-sem">FIBSEM importer</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats">Formats</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/lsm">LSM Toolbox</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/lurawave">LuraWave</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/olympus">OlympusImageJPlugin</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/pdf">Extract Images From PDF...</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export category-development"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/quicktime">QuickTime</a><br /> <span class="categories">Import-Export, Development</span> </div> </li> <li class="category-import-export category-development"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/tiff">TIFF</a><br /> <span class="categories">Import-Export, Development</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/vaa3d-reader">Vaa3d Reader</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/vaa3d-writer">Vaa3d Writer</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/formats/video">Video</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/2d-histogram">2D Histogram</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-3d category-binary"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-binary-filters">3D Binary Filters</a><br /> <span class="categories">3D, Binary</span> </div> </li> <li class="category-3d category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-blob-segmentation">3D Blob Segmentation</a><br /> <span class="categories">3D, Segmentation</span> </div> </li> <li class="category-3d category-digital-volume-unrolling category-digital-volume-flattening"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-cyclorama">3D cyclorama</a><br /> <span class="categories">3D, Digital Volume Unrolling, Digital Volume Flattening</span> </div> </li> <li class="category-3d category-analysis category-filtering category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-imagej-suite">3D ImageJ Suite</a><br /> <span class="categories">3D, Analysis, Filtering, Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-3d category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-objects-counter">3D Objects Counter</a><br /> <span class="categories">3D, Particle Analysis</span> </div> </li> <li class="category-3d category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-segmentation">3D Segmentation</a><br /> <span class="categories">3D, Segmentation</span> </div> </li> <li class="category-3d category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-surface-plot">3D Surface Plot</a><br /> <span class="categories">3D, Visualization</span> </div> </li> <li class="category-3d category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3d-viewer">3D Viewer</a><br /> <span class="categories">3D, Visualization</span> </div> </li> <li class="category-visualization category-scripting"> <img src="/media/icons/3dscript.png" height="25" /> <div> <a href="/plugins/3dscript">3Dscript</a><br /> <span class="categories">Visualization, Scripting</span> </div> </li> <li class="category-trakem2"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/3view-import-list">3View import list</a><br /> <span class="categories">TrakEM2</span> </div> </li> <li class="category-kymograph"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/Live-Kymographer">Live Kymographer</a><br /> <span class="categories">Kymograph</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/accpbfret">AccPbFRET</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-development"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/action-bar">ActionBar</a><br /> <span class="categories">Development</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/actogramj">ActogramJ</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/adaptive-median-filter">Adaptive Median Filter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/adelsons-squares">Adelson's Squares</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-automation category-analysis category-particle-analysis category-segmentation category-object-detection category-colocalization"> <img src="https://raw.githubusercontent.com/hansenjn/AdipoQ/main/Webfiles/AdipoQ%20Logo.png" height="25" /> <div> <a href="/plugins/adipoq">AdipoQ</a><br /> <span class="categories">Automation, Analysis, Particle Analysis, Segmentation, Object Detection, Colocalization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/adiposoft">Adiposoft</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/adjustable-watershed/adjustable-watershed">Adjustable Watershed</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/align-image-by-line-roi">Align Image by line ROI</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/align-rgb-planes">Align RGB planes</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-annotation category-interactive category-photogrammetry"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ampt">AMPT</a><br /> <span class="categories">Annotation, Interactive, Photogrammetry</span> </div> </li> <li class="category-scripting category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/anaglyph-for-red-cyan-glasses">Anaglyph for Red Cyan glasses</a><br /> <span class="categories">Scripting, Unmaintained</span> </div> </li> <li class="category-skeleton category-analysis category-neuroanatomy"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/analyze-skeleton">AnalyzeSkeleton</a><br /> <span class="categories">Skeleton, Analysis, Neuroanatomy</span> </div> </li> <li class="category-analysis category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/analyze-stripes">Analyze Stripes</a><br /> <span class="categories">Analysis, Tutorials</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/anisotropic-diffusion-2d">Anisotropic Diffusion 2D</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-annotation category-image-annotation category-deep-learning category-import-export category-segmentation category-object-detection category-classification category-interactive"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/annotatorj">AnnotatorJ</a><br /> <span class="categories">Annotation, Image Annotation, Deep Learning, Import-Export, Segmentation, Object Detection, Classification, Interactive</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/anomalous-diffusion-filters">Anomalous Diffusion Filters</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/aplimtools">AplimTools</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/archipelago-plugins">Archipelago Plugins</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/arrow">Arrow</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/atlas-toolkit">Atlas Toolkit</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/auto-crop">Auto Crop</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/auto-local-threshold">Auto Local Threshold</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/auto-threshold">Auto Threshold</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-transform category-registration category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/automated-workflow-for-parallel-multiview-reconstruction">Automated workflow for parallel Multiview Reconstruction</a><br /> <span class="categories">Transform, Registration, Deconvolution</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/automatic-detection-of-neuronal-labeling-in-histological-image-series">Automatic detection of neuronal labeling in histological image series</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/automatic-optimal-filament-segmentation">Automatic optimal filament segmentation</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/average-images">Average Images</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-machine-learning"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/axonet">AxoNet</a><br /> <span class="categories">Machine Learning</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/background-subtractor">Background Subtractor</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/balloon">Balloon segmentation</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-analysis category-filtering category-image-annotation category-scripting category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bar">BAR</a><br /> <span class="categories">Analysis, Filtering, Image Annotation, Scripting, Segmentation</span> </div> </li> <li class="category-automation category-color-processing category-import-export category-stacks"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/batch-composite">Batch Composite</a><br /> <span class="categories">Automation, Color Processing, Import-Export, Stacks</span> </div> </li> <li class="category-automation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/batch-processor">Batch Processor</a><br /> <span class="categories">Automation</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bdv">BigDataViewer</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-visualization category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bdv/server">BigDataServer</a><br /> <span class="categories">Visualization, Transform</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/big-data-processor-2">BigDataProcessor2</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/big-data-processor">BigDataProcessor</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-imglib category-registration category-stitching"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bigstitcher">BigStitcher</a><br /> <span class="categories">ImgLib, Registration, Stitching</span> </div> </li> <li class="category-visualization category-analysis category-curve-tracing"> <img src="/media/icons/bigtrace.png" height="25" /> <div> <a href="/plugins/bigtrace">BigTrace</a><br /> <span class="categories">Visualization, Analysis, Curve Tracing</span> </div> </li> <li class="category-visualization category-transform category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bigwarp">BigWarp</a><br /> <span class="categories">Visualization, Transform, Registration</span> </div> </li> <li class="category-filtering category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/biomat">Biomat</a><br /> <span class="categories">Filtering, Mathematical Morphology</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/biop-lookup-tables">BIOP Lookup Tables</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-particle-analysis category-segmentation"> <img src="https://www.biovoxxel.de/images/BioVoxxel_Logo.png" height="25" /> <div> <a href="/plugins/biovoxxel-toolbox">BioVoxxel Toolbox</a><br /> <span class="categories">Particle Analysis, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bleach-correction">Bleach Correction</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/blend-two-images">Blend two images</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/blind-analysis-tools">Blind Analysis Tools</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/block-matching">Block Matching</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-mathematical-morphology category-particle-analysis"> <img src="/media/icons/bonej.png" height="25" /> <div> <a href="/plugins/bonej">BoneJ</a><br /> <span class="categories">Analysis, Mathematical Morphology, Particle Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/bonej.png" height="25" /> <div> <a href="/plugins/bonej1">BoneJ1</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking category-tissue category-skeleton"> <img src="/media/icons/mtrack.png" height="25" /> <div> <a href="/plugins/btrack">Tissue Branch Tracker</a><br /> <span class="categories">Tracking, Tissue, Skeleton</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/bunwarpj">bUnwarpJ</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-particle-analysis category-segmentation"> <img src="https://biovoxxel.github.io/bv3dbox/images/bv3dbox-logo.png" height="25" /> <div> <a href="/plugins/bv3dbox">BioVoxxel 3D Box</a><br /> <span class="categories">Particle Analysis, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/c-elegans-beads-analysis">CElegansBeadsAnalysis plugin</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/calc-dspace">Calc dSpace</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/calculator-plus">Calculator Plus</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/camdu">CAMDU</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/care">CARE</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cats">CATS</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cell-counter">Cell Counter</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cell-detector">Cell detector</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/celsius-to-fahrenheit">Celsius to fahrenheit</a><br /> <span class="categories">Scripting, Unmaintained</span> </div> </li> <li class="category-automation category-3d category-analysis category-particle-analysis category-segmentation category-object-detection category-colocalization category-tracking category-cilia"> <img src="https://github.com/hansenjn/CiliaQ/blob/-/Webfiles/20200618%20CiliaQ%20Logo%20Small.png" height="25" /> <div> <a href="/plugins/ciliaq">CiliaQ</a><br /> <span class="categories">Automation, 3D, Analysis, Particle Analysis, Segmentation, Object Detection, Colocalization, Tracking, Cilia</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cip">CIP</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cipmm">CIPMM plugins</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/clahe">Enhance Local Contrast (CLAHE)</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/classic-watershed">Classic Watershed</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/clearvolume.png" height="25" /> <div> <a href="/plugins/clearvolume">ClearVolume</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/clij">CLIJ</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cluster-analysis">Cluster Analysis</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cmp-bia-tools">CMP-BIA tools</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-colocalization category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/coloc-2">Coloc 2</a><br /> <span class="categories">Colocalization, Color Processing</span> </div> </li> <li class="category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalization-by-cross-correlation">Colocalization by Cross Correlation</a><br /> <span class="categories">Colocalization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalization-image-creator">Colocalization Image Creator</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalization-object-counter">Colocalization Object Counter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-colocalization category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalization-test">Colocalization Test</a><br /> <span class="categories">Colocalization, Color Processing</span> </div> </li> <li class="category-colocalization category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalization-threshold">Colocalization Threshold</a><br /> <span class="categories">Colocalization, Color Processing</span> </div> </li> <li class="category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colocalize">Colocalize</a><br /> <span class="categories">Colocalization</span> </div> </li> <li class="category-segmentation category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colonyarea">ColonyArea</a><br /> <span class="categories">Segmentation, Registration</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/color-histogram">Color Histogram</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/color-inspector-3d">Color Inspector 3D</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colorizer-overlay">Colorizer Overlay</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colour-deconvolution">Colour Deconvolution</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/colour-merge">Colour merge</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/compute-curvatures">Compute Curvatures</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-complexity category-fractal-dimension category-entropy category-time-signal-analysis"> <img src="/media/plugins/comsystanj/comsystan-favicon.png" height="25" /> <div> <a href="/plugins/comsystanj">ComsystanJ</a><br /> <span class="categories">Complexity, Fractal Dimension, Entropy, Time Signal Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/contour-lines">Contour Lines</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/copy-pixel-size">Copy Pixel Size</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/correct-3d-drift">Correct 3D Drift</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cover-maker">Cover Maker</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cpu-meter">CPU Meter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/crop-3d">Crop (3D)</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/cross-sectional-analyzer">Cross Sectional Analyzer</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/csbdeep">CSBDeep</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering category-noise"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/csim-lab">CSIMLab</a><br /> <span class="categories">Filtering, Noise</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/deep-zoom">Deep Zoom</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/deepclas4bio">DeepClas4Bio</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/deformationtracker">DeformationTracker</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/deforming-mesh-3d">Deforming Mesh 3D</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/delaunay-voronoi">Delaunay Voronoi</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/delayed-snapshot">Delayed Snapshot</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-annotation category-segmentation category-feature-extraction"> <img src="https://raw.githubusercontent.com/Mighty-Data-Inc/dendritic-spine-counter/main/src/main/java/images/icons/dsc--find-spines.png?token=AABJVJLPWILI3C6C4QEA7JDBQDGM4" height="25" /> <div> <a href="/plugins/dendritic-spine-counter">Dendritic Spine Counter</a><br /> <span class="categories">Annotation, Segmentation, Feature Extraction</span> </div> </li> <li class="category-machine-learning category-denoising category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/denoiseg">DenoiSeg</a><br /> <span class="categories">Machine Learning, Denoising, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/descriptor-based-registration-2d-3d">Descriptor-based registration (2d/3d)</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/descriptor-based-registration">Descriptor based registration</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/detrendr">Detrendr</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dhm-utilities">DHM Utilities</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/diameterj">DiameterJ</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dichromacy">Dichromacy</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dicom-open">DICOM open</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/differentials">Differentials</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/diffraction-psf-3d">Diffraction PSF 3D</a><br /> <span class="categories">Deconvolution</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/directionality">Directionality</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-analysis category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/distance-analysis">Distance Analysis</a><br /> <span class="categories">Analysis, Colocalization</span> </div> </li> <li class="category-binary category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/distance-transform-3d">Distance Transform 3D</a><br /> <span class="categories">Binary, Unmaintained</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/distance-transform-watershed">Distance Transform Watershed</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/distortion-correction">Distortion Correction</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dithering">Dithering</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-3d category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/draw-3d-roi">Draw 3D ROI</a><br /> <span class="categories">3D, Segmentation</span> </div> </li> <li class="category-tutorials category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ds4h-image-alignment">DS4H Image Alignment</a><br /> <span class="categories">Tutorials, Registration</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dynamic-kymograph">Dynamic Kymograph</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dynamic-reslice">Dynamic Reslice</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting category-image-annotation category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/dynamic-roi-profiler">Dynamic ROI Profiler</a><br /> <span class="categories">Scripting, Image Annotation, Unmaintained</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/edge-and-symmetry-filter">Edge and symmetry filter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration category-trakem2"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/elastic-alignment-and-montage">Elastic Alignment and Montage</a><br /> <span class="categories">Registration, TrakEM2</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/elastix">Elastix</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ellipse-split">Ellipse split</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/epigraph">EpiGraph</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/extended-depth-of-field">Extended Depth of Field</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-analysis category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fast">FAST</a><br /> <span class="categories">Analysis, Segmentation</span> </div> </li> <li class="category-registration category-channel-alignment"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fast4dreg">Fast4DReg</a><br /> <span class="categories">Registration, Channel alignment</span> </div> </li> <li class="category-registration category-feature-extraction"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/feature-extraction">Feature Extraction</a><br /> <span class="categories">Registration, Feature Extraction</span> </div> </li> <li class="category-feature-extraction"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/feature-finder">Feature Finder</a><br /> <span class="categories">Feature Extraction</span> </div> </li> <li class="category-imagescience"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/featurej">FeatureJ</a><br /> <span class="categories">ImageScience</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/figurej">FigureJ</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fiji-developer">Fiji Developer</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fiji-logo-3d">Fiji Logo 3D</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fiji-plugins">Fiji Plugins</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-trakem2 category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fiji-z-spacing-correction">Fiji Z-Spacing Correction</a><br /> <span class="categories">TrakEM2, Transform</span> </div> </li> <li class="category-trakem2"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fijiarchipelago">FijiArchipelago</a><br /> <span class="categories">TrakEM2</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fijirelax">FijiRelax</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-analysis category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fijiwings">FijiWings</a><br /> <span class="categories">Analysis, Segmentation</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fijiyama">Fijiyama</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-object-detection category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/filament-detector">FilamentDetector</a><br /> <span class="categories">Object Detection, Tracking</span> </div> </li> <li class="category-analysis category-segmentation category-object-detection"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/filoquant">FiloQuant</a><br /> <span class="categories">Analysis, Segmentation, Object Detection</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/find-connected-regions">Find Connected Regions</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/find-dimension-of-raw-image">Find Dimension of Raw Image</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-scripting category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/find-peaks">Find Peaks</a><br /> <span class="categories">Scripting, Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fits-analysis">FITS Analysis</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-lifetime"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/flimj">FLIMJ</a><br /> <span class="categories">Analysis, Lifetime</span> </div> </li> <li class="category-optic-flow"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/flowj">FlowJ</a><br /> <span class="categories">Optic Flow</span> </div> </li> <li class="category-analysis category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/focust">FOCUST</a><br /> <span class="categories">Analysis, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fourier-ring-correlation">Fourier Ring Correlation Plugin</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/fpb.png" height="25" /> <div> <a href="/plugins/fpbioimage">Fpbioimage</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/frames">Frames</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/imagej2.png" height="25" /> <div> <a href="/plugins/frangi">Frangi</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-automation category-analysis category-cilia category-fast-fourier-transformation category-frequency-analysis"> <img src="https://raw.githubusercontent.com/hansenjn/FreQ/master/FreQ%20Logo%20Small.png" height="25" /> <div> <a href="/plugins/freq">FreQ</a><br /> <span class="categories">Automation, Analysis, Cilia, Fast Fourier Transformation, Frequency Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fs-align-trakem2">FS Align TrakEM2</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/fuzzy-set">Fuzzy Set Intensity Transformations</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/gabriel-graph">Gabriel Graph</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/gdsc-smlm2">GDSC-SMLM2</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/get-dspace">Get dSpace</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/get-meta">Get Meta</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/gift.png" height="25" /> <div> <a href="/plugins/gift">GIFT</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/glasbey">Glasbey</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-plotting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/gnu-plot">Gnu Plot</a><br /> <span class="categories">Plotting</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/granulometric-filtering">Granulometric Filtering</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-segmentation category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/graph-cut">Graph Cut</a><br /> <span class="categories">Segmentation, Tutorials</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/gray-morphology">Gray Morphology</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-registration category-stitching"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/grid-collection-stitching">Grid/Collection Stitching Plugin</a><br /> <span class="categories">Registration, Stitching</span> </div> </li> <li class="category-image-annotation category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/grid">Grid</a><br /> <span class="categories">Image Annotation, Unmaintained</span> </div> </li> <li class="category-analysis category-segmentation category-neuron category-gut"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/gut-analysis-toolbox">Gut Analysis Toolbox</a><br /> <span class="categories">Analysis, Segmentation, Neuron, Gut</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/hdf5-vibez">HDF5 Vibez</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/helmholtz-analysis">Helmholtz Analysis</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-help"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/help-on-menu-item">Help on Menu Item</a><br /> <span class="categories">Help</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/high-pass">High Pass</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/hill-shade">Hill Shade</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-analysis category-feature-extraction"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/hough-circle-transform">Hough Circle Transform</a><br /> <span class="categories">Analysis, Feature Extraction</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/hpc-workflow-manager">HPC Workflow Manager</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ij-blob">IJ Blob</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ij-robot">IJ Robot</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ijmmd">IJMMD</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image-annotation">Image Annotation</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image-expression-parser">Image Expression Parser</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image-stabilizer">Image Stabilizer</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-registration category-stitching category-cookbook"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image-stitching">Image Stitching</a><br /> <span class="categories">Registration, Stitching, Cookbook</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image-synthesizer">Image Synthesizer</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/image5d">Image5D</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-microscopy category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/imbalence">IMBalENce</a><br /> <span class="categories">Microscopy, Import-Export</span> </div> </li> <li class="category-cookbook category-tutorials category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/importing-image-files">Importing Image Files</a><br /> <span class="categories">Cookbook, Tutorials, Import-Export</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins">Plugins</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering category-integral-image"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/integral-image-filters">Integral Image Filters</a><br /> <span class="categories">Filtering, Integral Image</span> </div> </li> <li class="category-feature-extraction"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/intensity-profile-tools">Intensity Profile Tools</a><br /> <span class="categories">Feature Extraction</span> </div> </li> <li class="category-particle-analysis category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interaction-analysis">Interaction Analysis</a><br /> <span class="categories">Particle Analysis, Colocalization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interaction-factor">Interaction Factor</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-affine">Interactive Affine</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-plotting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-fitting">Interactive Fitting</a><br /> <span class="categories">Plotting</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-marker-controlled-watershed">Interactive Marker-controlled Watershed</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-moving-least-squares">Interactive Moving Least Squares</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-perspective">Interactive Perspective</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-rigid">Interactive Rigid</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-similarity">Interactive Similarity</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-transform category-interactive"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-stack-rotation">Interactive Stack Rotation</a><br /> <span class="categories">Transform, Interactive</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/interactive-watershed">Interactive Watershed</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/invasion-assay">Invasion assay</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-microscopy"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/isletj">IsletJ</a><br /> <span class="categories">Microscopy</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/isletj2">IsletJ2</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/isodata-classifier">IsoData Classifier</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/iterative-deconvolve-3d">Iterative Deconvolve 3D</a><br /> <span class="categories">Deconvolution</span> </div> </li> <li class="category-analysis category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/jacop">JaCoP</a><br /> <span class="categories">Analysis, Colocalization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/jfilament">JFilament</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/jipipe.svg" height="25" /> <div> <a href="/plugins/jipipe">Java Image Processing Pipeline (JIPipe)</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/kalman-stack-filter">Kalman Stack Filter</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-analysis category-curvature"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/kappa">Kappa</a><br /> <span class="categories">Analysis, Curvature</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/kuwahara-filter">Kuwahara Filter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-kymograph"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/kymograph-builder">KymographBuilder › Yet Another Kymograph Fiji plugin</a><br /> <span class="categories">Kymograph</span> </div> </li> <li class="category-stacks"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/kymoreslicewide">KymoResliceWide</a><br /> <span class="categories">Stacks</span> </div> </li> <li class="category-classification category-machine-learning"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/labkit">Labkit - Intuitive Pixel Classification in Fiji</a><br /> <span class="categories">Classification, Machine Learning</span> </div> </li> <li class="category-transform category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/landmark-correspondences">Landmark Correspondences</a><br /> <span class="categories">Transform, Registration</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/lasso-and-blow-tool">Lasso and Blow Tool</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/level-sets">Level Sets</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/limeseg.png" height="25" /> <div> <a href="/plugins/limeseg">LimeSeg</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/linear-distance">LinearDistance</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/linear-kuwahara">Linear Kuwahara</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/linear-stack-alignment-with-sift">Linear Stack Alignment with SIFT</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-scripting category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/list-all-threads">List all threads</a><br /> <span class="categories">Scripting, Unmaintained</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/local-thickness">Local Thickness</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/low-light-tracking-tool">Low Light Tracking Tool</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/lsm-worker">LSM Worker</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-color-processing category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/lumos-spectral-unmixing">LUMoS Spectral Unmixing</a><br /> <span class="categories">Color Processing, Colocalization</span> </div> </li> <li class="category-segmentation category-binary category-filtering category-image-annotation"> <img src="/media/icons/lungj.png" height="25" /> <div> <a href="/plugins/lungj">LungJ</a><br /> <span class="categories">Segmentation, Binary, Filtering, Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/m-i-p">M I P</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/make-fiji-package">Make Fiji Package</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/make-screencast">Make Screencast</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/malaria-sporozoites-9.2mb">Malaria Sporozoites (9.2MB)</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking category-tutorials"> <img src="/media/icons/mamut.png" height="25" /> <div> <a href="/plugins/mamut/getting-started">Getting started with MaMuT</a><br /> <span class="categories">Tracking, Tutorials</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/mamut.png" height="25" /> <div> <a href="/plugins/mamut">MaMuT</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/manual-drift-correction">Manual drift correction plugin</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-particle-analysis category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/manual-tracking">Manual Tracking</a><br /> <span class="categories">Particle Analysis, Tracking</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/marker-controlled-watershed">Marker-controlled Watershed</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mask-of-nearby-points">Mask Of Nearby Points</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation category-segmentation"> <img src="/media/icons/masks-from-rois.svg" height="25" /> <div> <a href="/plugins/masks-from-rois">Mask(s) from ROI(s)</a><br /> <span class="categories">Image Annotation, Segmentation</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mastodon">Mastodon</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-feature-extraction"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/max-inscribed-circles">Max Inscribed Circles</a><br /> <span class="categories">Segmentation, Feature Extraction</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/maximum-entropy-threshold">Maximum Entropy Threshold</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/microscope-focus-quality">Microscope Focus Quality</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/microscope-measurement-tools">Microscope Measurement Tools</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-tutorials category-matlab"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/miji">Miji</a><br /> <span class="categories">Tutorials, MATLAB</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mina">MiNA - Mitochondrial Network Analysis</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering category-interactive category-integral-image category-photography"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/miniature-faking">Miniature Faking</a><br /> <span class="categories">Filtering, Interactive, Integral Image, Photography</span> </div> </li> <li class="category-projection"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/minimum-cost-z-surface-projection">Minimum Cost Z surface Projection</a><br /> <span class="categories">Projection</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/minimum-maximum-median">Minimum/Maximum/Median</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scijava"> <img src="/media/icons/mitobo.png" height="25" /> <div> <a href="/plugins/mitobo">MiToBo</a><br /> <span class="categories">SciJava</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mixture-modeling-thresholding">Mixture Modeling Thresholding</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mobie">MoBIE</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-automation category-scripting"> <img src="/media/icons/mia.png" height="25" /> <div> <a href="/plugins/modularimageanalysis">ModularImageAnalysis (MIA)</a><br /> <span class="categories">Analysis, Automation, Scripting</span> </div> </li> <li class="category-analysis category-filtering category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/morpholibj">MorphoLibJ</a><br /> <span class="categories">Analysis, Filtering, Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-segmentation category-mathematical-morphology"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/morphological-segmentation">Morphological Segmentation</a><br /> <span class="categories">Segmentation, Mathematical Morphology</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mosaicj">MosaicJ</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-particle-analysis category-filtering category-colocalization category-deconvolution category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mosaicsuite">MOSAICsuite</a><br /> <span class="categories">Particle Analysis, Filtering, Colocalization, Deconvolution, Segmentation</span> </div> </li> <li class="category-automation category-analysis category-particle-analysis category-segmentation category-object-detection category-neuron category-tracking category-skeleton"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/motiq">MotiQ</a><br /> <span class="categories">Automation, Analysis, Particle Analysis, Segmentation, Object Detection, Neuron, Tracking, Skeleton</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/moving-least-squares">Moving Least Squares</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-perfusion category-mri"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mri-perfusion">MRI Perfusion</a><br /> <span class="categories">Perfusion, MRI</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ms-ecs-2d-update-site">MS-ECS-2D update site</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mser-parameters">MSER parameters</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking category-microtubules"> <img src="/media/icons/mtrack.png" height="25" /> <div> <a href="/plugins/mtrack">MTrack</a><br /> <span class="categories">Tracking, Microtubules</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mtrack2">MTrack2</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-tracking category-imagescience"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mtrackj">MTrackJ</a><br /> <span class="categories">Tracking, ImageScience</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multi-kymograph">Multi Kymograph</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multi-otsu-threshold">Multi Otsu Threshold</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-stacks category-montage category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multi-stack-montage">Multi Stack Montage</a><br /> <span class="categories">Stacks, Montage, Visualization</span> </div> </li> <li class="category-feature-extraction category-object-detection"> <img src="/media/icons/multi-template-matching.jpg" height="25" /> <div> <a href="/plugins/multi-template-matching">Multi-Template Matching</a><br /> <span class="categories">Feature Extraction, Object Detection</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multi-view-deconvolution">Multi-View Deconvolution</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multi-view-fusion">Multi-View Fusion</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-feature-extraction category-imagej2 category-mathematical-morphology category-stacks"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multifrac">Multifrac</a><br /> <span class="categories">Analysis, Feature Extraction, ImageJ2, Mathematical Morphology, Stacks</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multiple-image-processor">Multiple Image Processor</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multistackreg">MultiStackReg</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multithresholder">MultiThresholder</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-transform category-registration category-deconvolution category-imglib category-integral-image"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/multiview-reconstruction">Multiview-Reconstruction</a><br /> <span class="categories">Transform, Registration, Deconvolution, ImgLib, Integral Image</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mvr-definedataset">MVR-DefineDataset</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mvr-fusiondeconvolution">MVR-FusionDeconvolution</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/mvr-resavedataset">MVR-ResaveDataset</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-scripting category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/myofibrilj">MyofibrilJ</a><br /> <span class="categories">Scripting, Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/n2v">N2V</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/name-landmarks-and-register">Name Landmarks and Register</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/nanotrackj">NanoTrackJ</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/neuron-detector">NeuronDetector</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-imagescience category-neuroanatomy"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/neuronj">NeuronJ</a><br /> <span class="categories">ImageScience, Neuroanatomy</span> </div> </li> <li class="category-noise"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/noise-generator">Noise Generator</a><br /> <span class="categories">Noise</span> </div> </li> <li class="category-analysis"> <img src="/media/logos/noisee.png" height="25" /> <div> <a href="/plugins/noisee">NoiSee</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-denoising"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/non-local-means-denoise">Non Local Means Denoise</a><br /> <span class="categories">Denoising</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/nscale-segmentation">Nscale_segmentation</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/nucleus-counter">Nucleus Counter</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-ome"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/omevisual">OMEVisual</a><br /> <span class="categories">OME</span> </div> </li> <li class="category-ops"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/op-finder">Op Finder</a><br /> <span class="categories">Ops</span> </div> </li> <li class="category-scripting"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/openmpi-plugin-extensions">OpenMPI Plugin Extensions</a><br /> <span class="categories">Scripting</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/otoring">OtoRing</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/panorama">Panorama</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/parallel-iterative-deconvolution">Parallel Iterative Deconvolution</a><br /> <span class="categories">Deconvolution</span> </div> </li> <li class="category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/parallel-spectral-deconvolution">Parallel Spectral Deconvolution</a><br /> <span class="categories">Deconvolution</span> </div> </li> <li class="category-particle-analysis category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/particle-tracker">Particle Tracker</a><br /> <span class="categories">Particle Analysis, Tracking</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/particlesizer">ParticleSizer</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pendent-drop">Pendent Drop</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/perfusionmri">PerfusionMRI</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/photobend">PhotoBend</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/photon-imaging">PhotonImaging</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pillartracker-gui">PillarTracker GUI</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tracking category-visualization category-analysis category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pillartracker">PillarTracker</a><br /> <span class="categories">Tracking, Visualization, Analysis, Filtering</span> </div> </li> <li class="category-optic-flow"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/piv-analyser">PIV analyser</a><br /> <span class="categories">Optic Flow</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pixfret">PixFRET</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/point-analysis">Point Analysis</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/point-picker">Point Picker</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pqct">PQCT</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/process-puncta">Puncta Process</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/pub-montage">Pub Montage</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-example-data category-segmentation category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/public-data-sets">Public data sets</a><br /> <span class="categories">Example Data, Segmentation, Tracking</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/quali-annotations.svg" height="25" /> <div> <a href="/plugins/qualitative-annotations">Qualitative Annotations</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/quantile-based-normalization">Quantile Based Normalization</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-visualization category-user-interface"> <img src="media/icons/QuickFigure.png" height="25" /> <div> <a href="/plugins/quickfigures">QuickFigures</a><br /> <span class="categories">Visualization, User Interface</span> </div> </li> <li class="category-super-resolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/quickpalm">QuickPALM</a><br /> <span class="categories">Super-resolution</span> </div> </li> <li class="category-visualization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/quiver-plot">Quiver Plot</a><br /> <span class="categories">Visualization</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/radial-symmetry">Radial Symmetry</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-imagescience"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/randomj">RandomJ</a><br /> <span class="categories">ImageScience</span> </div> </li> <li class="category-segmentation category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rats">RATS: Robust Automatic Threshold Selection</a><br /> <span class="categories">Segmentation, Tutorials</span> </div> </li> <li class="category-import-export"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/read-and-write-excel">Read and Write Excel</a><br /> <span class="categories">Import-Export</span> </div> </li> <li class="category-trakem2"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/reconstruct-reader">Reconstruct Reader</a><br /> <span class="categories">TrakEM2</span> </div> </li> <li class="category-segmentation category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/region-competition">Region Competition</a><br /> <span class="categories">Segmentation, Deconvolution</span> </div> </li> <li class="category-registration category-trakem2"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/register-virtual-stack-slices">Register Virtual Stack Slices</a><br /> <span class="categories">Registration, TrakEM2</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/replace-red-with-magenta">Replace Red with Magenta</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/retina-analysis-toolkit">RETINA Analysis Toolkit</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/retinex">Retinex</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rgb-gray-merge">RGB-Gray Merge</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rgb-measure-plus">RGB Measure Plus</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rgb-profiler">RGB Profiler</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rgb-to-montage">RGB to Montage</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/ridge-detection">Ridge Detection</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rifret">RiFRET</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/robust-clump-splitting">Robust clump splitting</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/roi-click-tools.svg" height="25" /> <div> <a href="/plugins/roi-1-click-tools">Roi 1-click tools</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/roi-conversions">ROI Conversions</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/roi-group-table">Roi-group table</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/roi-picker">ROI Picker</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rolling-ball-background-subtraction">Rolling Ball Background Subtraction</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/rootsystemtracker">RootSystemTracker</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-cellprofiler"> <img src="/media/icons/cellprofiler.png" height="25" /> <div> <a href="/plugins/runimagejscript">RunImageJScript</a><br /> <span class="categories">CellProfiler</span> </div> </li> <li class="category-analysis category-microscopy"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/saim">Saim</a><br /> <span class="categories">Analysis, Microscopy</span> </div> </li> <li class="category-scripting category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/same-slice-in-multiple-images">Same Slice in Multiple Images</a><br /> <span class="categories">Scripting, Unmaintained</span> </div> </li> <li class="category-pattern-recognition"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sampen2d">SampEn2D</a><br /> <span class="categories">Pattern Recognition</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/samples">Samples</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-3d category-visualization"> <img src="/media/icons/sciview.png" height="25" /> <div> <a href="/plugins/sciview">sciview</a><br /> <span class="categories">3D, Visualization</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/segment-blob-in-3d-viewer">Segment blob in 3D Viewer</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/segmentation-editor">Segmentation Editor</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sem-fei-metadata-scale">SEM FEI metadata scale</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sem-joel-scale">SEM JOEL Scale</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-utilities category-macro category-macroextensions"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/serial-macro-extensions">Serial Macro Extensions</a><br /> <span class="categories">Utilities, Macro, MacroExtensions</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/series-labeler">Series Labeler</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/server">ImageJ Server</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/shape-filter">Shape Filter</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/shape-index-map">Shape Index Map</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/shape-smoothing">Shape Smoothing</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/shepp-logan-phantom">Shepp-Logan Phantom</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-neuroanatomy"> <img src="/media/icons/snt.png" height="25" /> <div> <a href="/plugins/sholl-analysis">SNT › Sholl Analysis</a><br /> <span class="categories">Analysis, Neuroanatomy</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/show-color-surfaces">Show Color Surfaces</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sigma-filter">Sigma Filter</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/simcheck">SIMcheck</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/simulate-color-blindness">Simulate Color Blindness</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/siox">SIOX: Simple Interactive Object Extraction</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-skeleton"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/skeletonize3d">Skeletonize3D</a><br /> <span class="categories">Skeleton</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/slice-labeler">Slice Labeler</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/slidej">SlideJ</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-analysis category-lifetime"> <img src="/media/icons/slim-curve.png" height="25" /> <div> <a href="/plugins/slim-curve">SLIM Curve</a><br /> <span class="categories">Analysis, Lifetime</span> </div> </li> <li class="category-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sme-projection">SME Projection</a><br /> <span class="categories">Analysis</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/snakuscule">Snakuscule</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-segmentation category-neuroanatomy"> <img src="/media/icons/snt.png" height="25" /> <div> <a href="/plugins/snt">SNT</a><br /> <span class="categories">Segmentation, Neuroanatomy</span> </div> </li> <li class="category-analysis category-neuroanatomy"> <img src="/media/icons/snt.png" height="25" /> <div> <a href="/plugins/snt/sholl">SNT › Sholl Analysis</a><br /> <span class="categories">Analysis, Neuroanatomy</span> </div> </li> <li class="category-skeleton category-analysis category-neuroanatomy"> <img src="/media/icons/snt.png" height="25" /> <div> <a href="/plugins/snt/strahler">SNT › Strahler Analysis (From Images)</a><br /> <span class="categories">Skeleton, Analysis, Neuroanatomy</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spatial-pathology-plugin">Spatial Pathology Plugin</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-automation category-analysis category-segmentation category-cilia category-kymograph"> <img src="https://raw.githubusercontent.com/hansenjn/SpermQ/master/Webfiles/20200708%20SpermQ%20Logo%20low%20res.png" height="25" /> <div> <a href="/plugins/spermq">SpermQ</a><br /> <span class="categories">Automation, Analysis, Segmentation, Cilia, Kymograph</span> </div> </li> <li class="category-unmaintained"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spheres-and-tubes-in-3d">Spheres and Tubes in 3D</a><br /> <span class="categories">Unmaintained</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-bead-registration-deprecated">SPIM Bead Registration (deprecated)</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-bead-registration">SPIM Bead Registration</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-opener">SPIM Opener</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-registration">SPIM Registration</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-registration/on-cluster">SPIM Registration on cluster (deprecated)</a><br /> <span class="categories">Registration</span> </div> </li> <li class="category-transform category-registration category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spim-workflow-manager-for-hpc">SPIM Workflow Manager For HPC</a><br /> <span class="categories">Transform, Registration, Deconvolution</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spimage-processing-course">SPIMage processing course</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spirals">Spirals</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-transform"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spline-deformation-generator">Spline Deformation Generator</a><br /> <span class="categories">Transform</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spot-intensity-analysis">Spot Intensity Analysis</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-analysis category-neuroanatomy"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spot-spine">Spot Spine</a><br /> <span class="categories">Analysis, Neuroanatomy</span> </div> </li> <li class="category-particle-analysis"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spotcounter">SpotCounter</a><br /> <span class="categories">Particle Analysis</span> </div> </li> <li class="category-colocalization"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spots-colocalization-comdet">Spots colocalization (ComDet)</a><br /> <span class="categories">Colocalization</span> </div> </li> <li class="category-particle-analysis category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/spottracker">SpotTracker</a><br /> <span class="categories">Particle Analysis, Tracking</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sprout-morphology">Sprout Morphology</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-segmentation category-colocalization category-deconvolution"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/squassh">Squassh</a><br /> <span class="categories">Segmentation, Colocalization, Deconvolution</span> </div> </li> <li class="category-analysis category-stacks"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/stack-fitter">Stack Fitter</a><br /> <span class="categories">Analysis, Stacks</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stack-manipulation">Stack Manipulation</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stack-object-combiner">StackObjectCombiner</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-transform category-registration"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stackreg">StackReg</a><br /> <span class="categories">Transform, Registration</span> </div> </li> <li class="category-machine-learning category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stardist">StarDist</a><br /> <span class="categories">Machine Learning, Segmentation</span> </div> </li> <li class="category-tutorials category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/statistical-region-merging">Statistical Region Merging</a><br /> <span class="categories">Tutorials, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stereomate">StereoMate</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stereoscopic-3d-projection">Stereoscopic 3D Projection</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-registration category-stitching"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stitching-2d-3d">Stitching 2D/3D</a><br /> <span class="categories">Registration, Stitching</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stitching-data-acquisition">Stitching data acquisition</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-denoising"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/stochastic-denoise">Stochastic Denoise</a><br /> <span class="categories">Denoising</span> </div> </li> <li class="category-skeleton category-analysis category-neuroanatomy"> <img src="/media/icons/snt.png" height="25" /> <div> <a href="/plugins/strahler-analysis">SNT › Strahler Analysis (From Images)</a><br /> <span class="categories">Skeleton, Analysis, Neuroanatomy</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/straighten">Straighten...</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/surfaceness">Surfaceness</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/synactj.png" height="25" /> <div> <a href="/plugins/synactj">SynActJ</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-user-interface"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/sync-windows">Sync Windows</a><br /> <span class="categories">User Interface</span> </div> </li> <li class="category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/syngenta-plugins/hue-colours">Hue Colors</a><br /> <span class="categories">Segmentation</span> </div> </li> <li class="category-automation category-analysis category-filtering category-segmentation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/tapas">TAPAS</a><br /> <span class="categories">Automation, Analysis, Filtering, Segmentation</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/tem-suite">TEM suite</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-color-processing"> <img src="/media/icons/fiji.svg" height="25" /> <div> <a href="/plugins/temporal-color-code">Temporal-Color Code</a><br /> <span class="categories">Color Processing</span> </div> </li> <li class="category-tracking category-filtering"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/temporal-median">Temporal Median</a><br /> <span class="categories">Tracking, Filtering</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/test-block-matching-parameters">Test Block Matching Parameters</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/test-java3d">Test Java3D</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/thread-killer">Thread Killer</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-filtering"> <img src="/media/icons/plugin_icon_ImageJColor.png" height="25" /> <div> <a href="/plugins/thresholded-blur">Thresholded Blur</a><br /> <span class="categories">Filtering</span> </div> </li> <li class="category-uncategorized"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/time-lapse">Time Lapse</a><br /> <span class="categories">Uncategorized</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/time-stamper">Time Stamper</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-image-annotation"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/timebar">Timebar</a><br /> <span class="categories">Image Annotation</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/toast">ToAST</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-tutorials"> <img src="/media/icons/plugin.png" height="25" /> <div> <a href="/plugins/topoj">TopoJ</a><br /> <span class="categories">Tutorials</span> </div> </li> <li class="category-track-analysis"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/actions/branch-hierarchy-analysis">Branch hierarchy analysis</a><br /> <span class="categories">Track analysis</span> </div> </li> <li class="category-segmentation category-tracking category-benchmark"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/actions/close-gaps-action">Close gaps in tracks by introducing new spots</a><br /> <span class="categories">Segmentation, Tracking, Benchmark</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/actions">TrackMate Actions</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking category-benchmark"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/actions/trackmate-ctc-exporter">Export tracking results in the cell tracking challenge format</a><br /> <span class="categories">Segmentation, Tracking, Benchmark</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/actions/trackmate-extrack">TrackMate-ExTrack</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/difference-of-gaussian">TrackMate DoG detector</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/cellpose.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-cellpose-advanced">TrackMate-Cellpose-Advanced</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/cellpose.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-cellpose">TrackMate-Cellpose</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/trackmate-ilastik.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-ilastik">TrackMate-Ilastik</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-label-image-detector">TrackMate-Label-Image-Detector</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking category-deep-learning category-machine-learning"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-lacss">TrackMate-Lacss</a><br /> <span class="categories">Segmentation, Tracking, Deep Learning, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-mask-detector">TrackMate Mask detector</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate-morpholibj.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-morpholibj">TrackMate-MorphoLibJ</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/omniposelogo.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-omnipose-advanced">TrackMate-Omnipose-Advanced</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/omniposelogo.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-omnipose">TrackMate-Omnipose</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/trackmate-stardist.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-stardist">TrackMate-StarDist</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-thresholding-detector">TrackMate-Thresholding-Detector</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-tracking category-segmentation"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-v7-detectors">TrackMate v7 detectors</a><br /> <span class="categories">Tracking, Segmentation</span> </div> </li> <li class="category-segmentation category-tracking category-machine-learning"> <img src="/media/icons/trackmate-weka.png" height="25" /> <div> <a href="/plugins/trackmate/detectors/trackmate-weka">TrackMate-Weka</a><br /> <span class="categories">Segmentation, Tracking, Machine Learning</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/extending">Extending TrackMate</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-segmentation category-tracking category-benchmark"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/extensions/trackmate-helper">TrackMate-Helper</a><br /> <span class="categories">Segmentation, Tracking, Benchmark</span> </div> </li> <li class="category-tracking category-kymograph"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/extensions/trackmate-kymograph">TrackMate Kymograph</a><br /> <span class="categories">Tracking, Kymograph</span> </div> </li> <li class="category-tracking"> <img src="/media/icons/mtrack.png" height="25" /> <div> <a href="/plugins/trackmate/extensions/trackmate-oneat">TrackMate-Oneat</a><br /> <span class="categories">Tracking</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate">TrackMate</a><br /> <span class="categories">Segmentation, Tracking</span> </div> </li> <li class="category-tracking category-segmentation"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/misc/faq">TrackMate FAQ</a><br /> <span class="categories">Tracking, Segmentation</span> </div> </li> <li class="category-tracking category-segmentation"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/scripting/scripting">Scripting TrackMate</a><br /> <span class="categories">Tracking, Segmentation</span> </div> </li> <li class="category-tracking category-segmentation category-scripting"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a href="/plugins/trackmate/scripting/trackmate-detectors-trackers-keys">Setting keys for TrackMate detectors and trackers</a><br /> <span class="categories">Tracking, Segmentation, Scripting</span> </div> </li> <li class="category-segmentation category-tracking"> <img src="/media/icons/trackmate.png" height="25" /> <div> <a 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