This page lists unreviewed pages on this wiki, which have not yet been compared to their counterparts from the old wiki to ensure they look as good or better than before. It was originally part of the “Great Wiki Launch” editing sprint of June 1-4, 2021, but the list remains useful for vetting pages that still have not been checked.
Pages on the site
As we review pages and mark them done, they will automatically disappear from the Pages remaining list, and advance the progress bar. Our goal is to review every page by the end of Friday, June 4! WE CAN DO IT! 💪
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- Finer Grained Debian Packages
- Debugging
- Debugging Exercises
- Developing ImageJ2 in Eclipse
- Gradle
- IDEs
- Unit tests for ImageJ
- How to contribute to an existing plugin or library
- Developing ImageJ2 in IntelliJ IDEA
- Javassist
- Kotlin
- Logging
- Using Maven with Eclipse
- MiniMaven
- Developing ImageJ2 in NetBeans
- Supported Compilers
- TensorFlow-GPU
- UpdaterV1
- UpdaterV2
- Using Weka
/develop
- Migrating from DokuWiki
/editing
- 2008 Hackathon in Dresden
- 2011 Hackathon in Madison
- Image Processing School Pilsen 2009
- ISBI 2012
- Segmentation of neuronal structures in EM stacks challenge - ISBI 2012
/events
- GSoC 2011 Ideas
/events/gsoc-2011
- Particle Analysis
- Registration
- Segmentation
- Spatial Calibration
- Stack-slice Manipulations
- T-functions
- Thresholding
- Tracking
- Visualization
- Voxelization
- Watershed Separation
- Z-functions
/imaging
- Comparison of Matlab functions and Ops
- Ops Deconvolution
- ImageJ Ops
/libs/imagej-ops
- ImgLib1
- ImgLib1: Iterating through pixel data
- Using ImgLib1 in an ImageJ plugin
- Into ImgLib - Generic Image Processing in Java
/libs/imglib1
- ImgLib2 - Accessibles
- ImgLib2 Algorithms
- ImgLib2 Benchmarks
- Changes from ImgLib1 to ImgLib2
- Developing ImgLib2
- ImgLib2 Documentation
- ImgLib2 FAQ
- Gauss package for ImgLib2
- LoopBuilder
- Creating Imglib2 images in MATLAB
- Imglib2 Morphological Operations
- ImgLib2 - Advanced Programming Workshop
/libs/imglib2
- Bob Hanson
- Shang Jyun Lin
- Till Bretschneider
- Daniel E. Maidana
- Benjamin Wilhelm
- IMBMicroscopy
- James C. Sears
- Michal Karm Babacek
- Martin Čapek
- Lasse Wollatz
- Lee Kamentsky
- Juan Pablo
- Nathan Hotaling
- Gavin Minty
- Nicholas Condon
- Pablo Vicente-Munuera
- Pedro Gomez-Galvez
- Rainer Heintzmann
- Stephan Janosch
- Julien Cochennec
- Weisong Zhao
- Yaman al-Yousof
- Antonio Carlos da Silva Senra Filho
- Astha Jaiswal
- Alessandro Felder
- Alexander Krull
- Alexandre Bastien
- Andrew McCall
- Stanislav Chizhik
- Audrey Karperien
- Piotr Baniukiewicz
- Benjamin Schmid
- Benoit Lombardot
- Birgit Möller
- BioVoxxel
- Beat Münch
- Benjamin Nanes
- Brian Northan
- Blair Rossetti
- Daniel James White
- Cyril TURIÈS
- Damien Ramunno-Johnson
- Daniel Sage
- David Colameo
- Demis D. John
- Christian Dietz
- Eugene Katrukha
- Erik Meijering
- Florian Jug
- Deborah Schmidt
- Helder C. R. de Oliveira
- HongKee Moon
- Ignacio Arganda-Carreras
- Irving Hernández
- Ilan Tal
- Wilhelm Burger
- Jim Schaff
- Gregory Jefferis
- Jiri Janacek
- Joost Willemse
- Kyle Harrington
- Karl-Heinz Kunzelmann
- Kouichi C. Nakamura
- Olivier Burri
- Gabriel Landini
- Alan Brooks
- Larry Lindsey
- Leonard Dobens
- Lennart Hilbert
- Benjamin Smith
- Luis Escudero
- Jan Martens
- Matthias Arzt
- Thomas Boudier
- Michael Doube
- Melissa Linkert
- Michael Majurski
- Jerome Mutterer
- Marwan Zouinkhi
- Nick Perry
- Nico Stuurman
- Cronin Seynnes
- Norbert Vischer
- Yu Liu
- George Patterson
- Richard Domander
- Xiaochun Xu
- Shaohe Wang
- Sean Parsons
- Steven J. West
- Ian Sweeney
- Vitor Vaz da Silva
- Tiago Ferreira
- Matt McCormick
- Thorsten Wagner
- Jean-Yves Tinevez
- Gabriella Turek
- Victor Caldas
- Verena Kaynig-Fittkau
- T. Vuillaume
- Martin Ovesný
/people
- 2D Histogram
- 3D Binary Filters
- 3D Blob Segmentation
- 3D cyclorama
- 3D Objects Counter
- 3D Segmentation
- 3D Surface Plot
- 3Dscript
- 3View import list
- ActionBar
- ActogramJ
- Adaptive Median Filter
- Adelson's Squares
- Adiposoft
- Align Image by line ROI
- Align RGB planes
- Anaglyph for Red Cyan glasses
- Analyze Stripes
- Anisotropic Diffusion 2D
- Anomalous Diffusion Filters
- AplimTools
- Archipelago Plugins
- Atlas Toolkit
- Auto Crop
- Auto Local Threshold
- Auto Threshold
- Automatic detection of neuronal labeling in histological image series
- Automatic optimal filament segmentation
- Average Images
- AxoNet
- Background Subtractor
- BAR
- Batch Processor
- BigDataProcessor
- BigDataProcessor2
- Biomat
- BioVoxxel Toolbox
- Bleach Correction
- Blend two images
- Blind Analysis Tools
- Block Matching
- BoneJ1
- BUnwarpJ
- CElegansBeadsAnalysis plugin
- Calc dSpace
- Calculator Plus
- CAMDU
- CARE
- CATS
- Cell Counter
- Cell detector
- Celsius to fahrenheit
- Enhance Local Contrast (CLAHE)
- Classic Watershed
- ClearVolume
- CLIJ
- Cluster Analysis
- CMP-BIA tools
- Colocalization Image Creator
- Colocalization Object Counter
- Colocalization Test
- Colocalization Threshold
- Colocalize
- Color Histogram
- Color Inspector 3D
- Colorizer Overlay
- Colour Deconvolution
- Colour merge
- Compute Curvatures
- Contour Lines
- Copy Pixel Size
- Correct 3D Drift
- Cover Maker
- CPU Meter
- Crop (3D)
- Cross Sectional Analyzer
- CSBDeep
- CSIMLab
- Deep Zoom
- DeepClas4Bio
- DeformationTracker
- Deforming Mesh 3D
- Delaunay Voronoi
- Delayed Snapshot
- Descriptor based registration
- Descriptor-based registration (2d/3d)
- Detrendr
- DiameterJ
- Dichromacy
- DICOM open
- Differentials
- Diffraction PSF 3D
- Directionality
- Distance Analysis
- Distance Transform 3D
- Distance Transform Watershed
- Dithering
- DS4H Image Alignment
- Dynamic Kymograph
- Dynamic Reslice
- Edge and symmetry filter
- Elastic Alignment and Montage
- Elastix
- Ellipse split
- EpiGraph
- Extended Depth of Field
- EzFig
- FAST
- Feature Extraction
- FeatureJ
- FigureJ
- Fiji Developer
- Fiji Logo 3D
- Fiji Plugins
- Fiji/Z-Spacing Correction
- FijiArchipelago
- FijiRelax
- FijiWings
- Fijiyama
- FilamentDetector
- Find Connected Regions
- Find Dimension of Raw Image
- Find Peaks
- FITS Analysis
- FLIMJ
- FlowJ
- Fourier Ring Correlation Plugin
- Fpbioimage
- Frames
- Frangi
- FS Align TrakEM2
- Fuzzy Set Intensity Transformations
- Gabriel Graph
- GDSC-SMLM2
- Get dSpace
- Get Meta
- Glasbey
- Gnu Plot
- Granulometric Filtering
- Graph Cut
- Gray Morphology
- Grid
- Grid/Collection Stitching Plugin
- HDF5 Vibez
- Helmholtz Analysis
- Help on Menu Item
- Hill Shade
- Hough Circle Transform
- IJ Blob
- IJ Robot
- IJMMD
- Image Annotation
- Image Expression Parser
- Image Stabilizer
- Image Stitching
- Image Synthesizer
- Image5D
- IMBalENce
- Importing Image Files
- Plugins
- Integral Image Filters
- Interaction Analysis
- Interaction Factor
- Interactive Affine
- Interactive Fitting
- Interactive Marker-controlled Watershed
- Interactive Moving Least Squares
- Interactive Perspective
- Interactive Rigid
- Interactive Similarity
- Interactive Stack Rotation
- Interactive Watershed
- Invasion assay
- IsletJ
- IsletJ2
- IsoData Classifier
- Iterative Deconvolve 3D
- JFilament
- Kalman Stack Filter
- Kappa
- Kuwahara Filter
- KymographBuilder › Yet Another Kymograph Fiji plugin
- KymoResliceWide
- Landmark Correspondences
- Lasso and Blow Tool
- Level Sets
- LinearDistance
- Linear Kuwahara
- Linear Stack Alignment with SIFT
- List all threads
- Local Thickness
- Low Light Tracking Tool
- LSM Worker
- LUMoS Spectral Unmixing
- LungJ
- M I P
- Make Fiji Package
- Make Screencast
- Malaria Sporozoites (9.2MB)
- Manual drift correction plugin
- Manual Tracking
- Marker-controlled Watershed
- Mask Of Nearby Points
- Max Inscribed Circles
- Maximum Entropy Threshold
- Microscope Focus Quality
- Microscope Measurement Tools
- Miji
- MiNA - Mitochondrial Network Analysis
- Minimum Cost Z surface Projection
- Minimum/Maximum/Median
- Mixture Modeling Thresholding
- MoBIE
- MorphoLibJ
- Morphological Segmentation
- MosaicJ
- MOSAICsuite
- Moving Least Squares
- MRI Perfusion
- MS-ECS-2D update site
- MSER parameters
- MTrack2
- MTrackJ
- Multi Kymograph
- Multi Otsu Threshold
- Multi Stack Montage
- Multi-View Deconvolution
- Multi-View Fusion
- Multifrac
- Multiple Image Processor
- MultiThresholder
- Multiview-Reconstruction
- MVR-FusionDeconvolution
- MVR-ResaveDataset
- MyofibrilJ
- N2V
- Name Landmarks and Register
- NanoTrackJ
- NeuronDetector
- NeuronJ
- Noise Generator
- NoiSee
- Non Local Means Denoise
- Nucleus Counter
- OMEVisual
- Op Finder
- OtoRing
- Panorama
- Parallel Iterative Deconvolution
- Parallel Spectral Deconvolution
- Particle Tracker
- ParticleSizer
- Pendent Drop
- PerfusionMRI
- PhotoBend
- PhotonImaging
- PillarTracker
- PillarTracker GUI
- PIV analyser
- PixFRET
- Point Analysis
- Point Picker
- PQCT
- Pub Montage
- Public data sets
- Quantile Based Normalization
- Quiver Plot
- Radial Symmetry
- RandomJ
- RATS: Robust Automatic Threshold Selection
- Read and Write Excel
- Reconstruct Reader
- Region Competition
- Register Virtual Stack Slices
- Replace Red with Magenta
- RETINA Analysis Toolkit
- Retinex
- RGB-Gray Merge
- RGB Measure Plus
- RGB Profiler
- RGB to Montage
- Ridge Detection
- Robust clump splitting
- ROI Conversions
- ROI Picker
- Rolling Ball Background Subtraction
- Saim
- Same Slice in Multiple Images
- SampEn2D
- Samples
- sciview
- Segment blob in 3D Viewer
- Segmentation Editor
- SEM FEI metadata scale
- SEM JOEL Scale
- Series Labeler
- ImageJ Server
- Shape Filter
- Shape Index Map
- Shape Smoothing
- Shepp-Logan Phantom
- Sholl Analysis
- Show Color Surfaces
- Sigma Filter
- SIMcheck
- Simulate Color Blindness
- SIOX: Simple Interactive Object Extraction
- Skeletonize3D
- Slice Labeler
- SlideJ
- SLIM Curve
- SME Projection
- Snakuscule
- Spheres and Tubes in 3D
- SPIM Bead Registration
- SPIM Bead Registration (deprecated)
- SPIM Opener
- SPIMage processing course
- Spirals
- Spline Deformation Generator
- Spot Intensity Analysis
- SpotCounter
- Spots colocalization (ComDet)
- SpotTracker
- Sprout Morphology
- Squassh
- Stack Manipulation
- StackObjectCombiner
- StackReg
- StarDist
- Statistical Region Merging
- StereoMate
- Stereoscopic 3D Projection
- Stitching 2D/3D
- Stitching data acquisition
- Stochastic Denoise
- Strahler Analysis
- Straighten...
- Surfaceness
- TAPAS
- TEM suite
- Temporal Median
- Test Block Matching Parameters
- Test Java3D
- Thread Killer
- Time Lapse
- Time Stamper
- ToAST
- TopoJ
- TraJClassifier
- TrakEM2 Archipelago
- Transform Virtual Stack Slices
- TransformJ
- TreeJ
- Tubeness
- TurboReg
- Tutorial Maker
- UnwarpJ
- Updater
- Upload Sample Image
- Vessel Analysis
- VHPro
- VIB Protocol
- Video Editing
- View5D
- VisBio Fiji plugin
- Void Whizzard
- Volume Calculator
- Volume Viewer
- Watershed Algorithm (ImageJ plugin)
- Wavelet Denoise
- Xlib
- ZedMate
- ZFBONE
/plugins
- 3D Filters
- 3D ImageJ Suite
- 3D Mathematical Morphology
/plugins/3d-imagej-suite
- 3D Viewer › 4D Viewer
- 3D Viewer › Apply Transformation
- 3D Viewer › Change Attributes
- 3D Viewer › Content Structure
- 3D Viewer › Custom Surface
- 3D Viewer › CustomBehavior
- 3D Viewer › Developer Documentation
- 3D Viewer › Display a Stack
- 3D Viewer › Example code
- 3D Viewer › Highlight Points
- 3D Viewer
- 3D Viewer › Isosurface
- 3D Viewer › Record a Movie
- 3D Viewer › Screencasts
- 3D Viewer › Surface Plot
- 3D Viewer › Volume Rendering
/plugins/3d-viewer
- Analyze Skeleton 2D time series
- AnalyzeSkeleton
- Skeleton analysis video tutorial
/plugins/analyze-skeleton
- BigDataViewer Example Datasets
- BigDataViewer
- BigDataViewer Playground
- Bigdataviewer Scijava
/plugins/bdv
- BigStitcher › Advanced Stitching
- BigStitcher › AutoLoader
- BigStitcher › BigDataViewer
- BigStitcher › Bounding Box
- BigStitcher › Brightness/Contrast Adjustment
- BigStitcher › Deconvolution
- BigStitcher › Define New Dataset
- BigStitcher › Flatfield Correction
- BigStitcher › Fourier Ring Correlation
- BigStitcher › Image Fusion
- BigStitcher › Global Optimization
- BigStitcher › Headless
- BigStitcher › Iterative Closest Point Refinement
- BigStitcher › Image Splitting
- BigStitcher
- BigStitcher › Interest Point Management
- BigStitcher › Interest Points
- BigStitcher › Manual Translation
- BigStitcher › MultiView Mode
- BigStitcher › Open Existing
- BigStitcher › Pairwise Shift
- BigStitcher › Preview Pairwise Shift
- BigStitcher › Point Spread Functions
- BigStitcher › Registration
- BigStitcher › Reorient Sample
- BigStitcher › Select Illumination
- BigStitcher › Special Dataset Importers
- BigStitcher › Stack-based Dataset Import
- BigStitcher › Stitching Mode
/plugins/bigstitcher
- DHM Utilities
- DHM Utilities/Multi-Image Landmark Correspondences
- DHM Utilities/Phase Unwrapping
- DHM Utilities/Reconstruction
/plugins/dhm-utilities
- Labkit
/plugins/labkit
- Getting started with MaMuT
- MaMuT
/plugins/mamut
- Advanced mode(MTrack)
- Batch mode(MTrack)
- MicrotubuleTracker
- Microtubule polarity and (+) end vs. (-) end tracking
- Read more on microtubule polarity and (+) end vs. (-) end tracking
- Read more about MSER parameters
- Read more about Preprocessing
- Read more on RANSAC models
- Read more about the RANSAC parameters
- MSER as the segmentation method
- Preprocessing(MTrack)
- More explanation
- MTrack-Ransac fits
- MTrack-RANSAC models
- MTrack-RANSAC parameters
- Sub-pixel localization parameter selection
- Watershedding and Hough transform parameters
- Watershed followed by MSER
/plugins/mtrack
- Simple Neurite Tracer › 3D Interaction
- Simple Neurite Tracer › Basic Instructions
- Simple Neurite Tracer › "Export to SWC" Tutorial
- Simple Neurite Tracer › Preprocessing Data for Better Results
- Simple Neurite Tracer › Screencasts
- Simple Neurite Tracer › Selecting paths
- Simple Neurite Tracer › Sholl Analysis
- Simple Neurite Tracer › Step-By-Step Instructions
- Simple Neurite Tracer › Testing Procedure
- Simple Neurite Tracer › Using MIP Overlays
- Simple Neurite Tracer › Wishlist
/plugins/simple-neurite-tracer
- SNT › Analysis
- SNT › FAQ
- SNT
- SNT › Key Shortcuts
- SNT › Manual
- SNT › Modeling
- SNT › Reconstruction Viewer
- SNT › Screencasts
- SNT › Scripting
- SNT › Step-By-Step Instructions
- SNT › .traces File Format
- SNT › Tubular Geodesics
/plugins/snt
- SPIM Registration
- SPIM Registration Method
/plugins/spim-registration
- TrackMate FAQ
- Find maxima (TrackMate module)
- Getting started with TrackMate
- Manual editing of tracks using TrackMate
- Manual tracking with TrackMate
- TrackMate Performance
- Scripting TrackMate
- Using TrackMate from MATLAB
- TrackMate version history
/plugins/trackmate
- Trainable Segmentation Plugin Implementation
- Trainable Segmentation Plugin (deprecated)
/plugins/trainable-segmentation
- TrakEM2 add more sections/layers tutorial
- TrakEM2 align sections tutorial
- TrakEM2 basics tutorial
- TrakEM2
- TrakEM2 measurements tutorial
- TrakEM2 saving project tutorial
- TrakEM2 Scripting
- TrakEM2 segmentation modes tutorial
- TrakEM2 semi-automatic segmentation tutorial
- TrakEM2 TPlugIn
- TrakEM2 tutorials
/plugins/trakem2
- Trainable Weka Segmentation - How to compare classifiers
- Trainable Weka Segmentation - How to install new classifiers
- Trainable Weka Segmentation
- Minimum Splits and Mergers Warping error
- Rand error
- Scripting the Trainable Weka Segmentation
- Topology preserving warping error
/plugins/tws
- Script Editor Auto Import
- Scripting basics
- Batch Processing
- BeanShell Scripting
- Clojure Scripting
- Scripting comparisons
- Groovy Scripting
- Scripting
/scripting
- Jython Scripting Examples
- Jython Scripting
/scripting/jython
- Bio7
- BioDIP
- BioImageXD
- CellProfiler
- Endrov
- FunImageJ
- Icy
- ImageJFX
- ImageJX
- ImagePy
- ImageSXM
- ITK
- JEX
- KNIME
- Micro-Manager
- SciJava Jupyter Kernel
- Virtual Cell
- VisBio
/software
- Downloading and Building Fiji From Source
- Featured Fiji Projects
- Links
- Fiji/Publications
/software/fiji
- ImageJ2 development releases
- ImageJ2 grant proposal
- ImgLibProcessor
- ImageJ2 implementation notes
/software/imagej2
- Analyze FRAP movies with a Jython script
- How to apply a common operation to a complete directory
- How to call a plugin with a range of parameters
- Correcting drift in FRAP experiments
- Downsample
- Edit LUT As Text
- Gabor Filter script
- Generate and exploit Kymographs
- The Hue Game
- ImageJ2 Python Scripts
- Mamed
- Multithreaded Image Processing in Clojure
- Multithreaded Image Processing in JavaScript
- Plasma Cloud
- RGB to CMYK
- Segmentation evaluation after border thinning - Script
- Segmentation evaluation metrics - Script
- Image Processing School Pilsen 2009 - Segmentation
- Stitch and Align a sequence of grid images Tutorial
- Super Sloppy Surface Reconstruction
/tutorials
- Automatic Update Site Uploads
- How to upload to core update sites
- Update site FAQ
- Update Sites
- Update Site ›LOCI
/update-sites
- Neuroanatomy ›External Resources
- Neuroanatomy
