Plugins

2010-06-14 - Fiji "Heidelberg" is out

2011-03-16 - Elastic aligment and montaging

3D Objects Counter

3D Surface Plot

3D Viewer

3Dscript

3View import list

ActogramJ

Align Image by line ROI

Align RGB planes

Anaglyph for Red Cyan glasses

AnalyzeSkeleton

Analyze Skeleton 2D time series

Analyze Stripes

Anisotropic Diffusion 2D

AplimTools

Arrow

Atlas Toolkit

Auto Crop

Auto Local Threshold

Auto Threshold

Automatic detection of neuronal labeling in histological image series

Automatic optimal filament segmentation

BAR

BUnwarpJ

Background Subtractor

Balloon

BigWarp

Biomat

Bleach Correction

Blend two images

Block Matching

Cell Counter

Celsius to fahrenheit

Chess

Classic Watershed

ClearVolume

Coloc 2

Colocalization Test

Colocalization Threshold

Colocalization by Cross Correlation

Colocalize

Color Histogram

Color Inspector 3D

Colorizer Overlay

Colour Deconvolution

Colour merge

Copy Pixel Size

Correct 3D Drift

Cover Maker

Crop (3D)

DHM Utilities

DHM Utilities/Phase Unwrapping

DHM Utilities/Reconstruction

DICOM open

DS4H Image Alignment

Deep Zoom

Delaunay Voronoi

Delayed Snapshot

Descriptor based registration

DiameterJ

Dichromacy

Differentials

Diffraction PSF 3D

Directionality

Distance Analysis

Distance Transform Watershed

Distortion Correction

Dithering

Dynamic ROI Profiler

Dynamic Reslice

Elastic Alignment and Montage

Enhance Local Contrast (CLAHE)

Extended Depth of Field

Extract Images From PDF...

FS Align TrakEM2

FeatureJ

Feature Extraction

FijiArchipelago

Fiji Developer

Fiji Logo 3D

Fiji/Menu

Fiji Plugins

Fiji/Z-Spacing Correction

Fijiyama

Find Dimension of Raw Image

Find Peaks

FlowJ

Fourier Ring Correlation Plugin

Frames

Gabriel Graph

Gnu Plot

Granulometric Filtering

Graph Cut

Gray Morphology

Grid

Helmholtz Analysis

Hill Shade

IJ Robot

Image5D

Image Expression Parser

Image Stabilizer

Image Stitching

Importing Image Files

Integral Image Filters

Interaction Analysis

Interactive Affine

Interactive Fitting

Interactive Marker-controlled Watershed

Interactive Moving Least Squares

Interactive Perspective

Interactive Rigid

Interactive Similarity

Interactive Stack Rotation

Interactive Watershed

IsoData Classifier

Iterative Deconvolve 3D

JFilament

Kalman Stack Filter

Kuwahara Filter

KymoResliceWide

LSM Toolbox

LUMoS Spectral Unmixing

Landmark Correspondences

Lasso and Blow Tool

Level Sets

Linear Distance

Linear Kuwahara

Linear Stack Alignment with SIFT

List all threads

Local Thickness

LungJ

MOSAICsuite

MTrack2

MTrackJ

M I P

MaMuT

Make Fiji Package

Manual Tracking

Manual drift correction plugin

Marker-controlled Watershed

Max Inscribed Circles

Maximum Entropy Threshold

MiToBo

Microscope Measurement Tools

Miniature Faking

Minimum Cost Z surface Projection

Mixture Modeling Thresholding

MorphoLibJ

Morphological Segmentation

MosaicIA

MosaicJ

Moving Least Squares

Multi-Template Matching

MultiThresholder

Multi Kymograph

Multi Otsu Threshold

Multi Stack Montage

Multiple Image Processor

Multithreaded Image Processing in Clojure

Multithreaded Image Processing in JavaScript

Multiview-Reconstruction

MyofibrilJ

Name Landmarks and Register

NeuronJ

NoiSee

Nucleus Counter

OMEVisual

OlympusImageJPlugin

PIV analyser

PQCT

Panorama

Parallel Iterative Deconvolution

Parallel Spectral Deconvolution

Particle Tracker

PhotoBend

PillarTracker

PlugIn Design Guidelines

PointPicker

Point Analysis

Point Picker

RATS › Robust Automatic Threshold Selection

RGB-Gray Merge

RGB Measure Plus

RGB Profiler

RGB to Montage

ROI Picker

RandomJ

Read and Write Excel

Reconstruct Reader

Region Competition

Register Virtual Stack Slices

Replace Red with Magenta

Report a Bug

Retinex

Roi 1-click tools

Rolling Ball Background Subtraction

SIMcheck

SIOX › Simple Interactive Object Extraction

SLIM Curve

SME Projection

SNT

SNT › Tubular Geodesics

SPIM Bead Registration (deprecated)

SPIM Opener

SPIM Registration

SPIM Registration Method

Saim

Same Slice in Multiple Images

Samples

Save as animated gif

Segment blob in 3D Viewer

Segmentation Editor

Shape Index Map

Shepp-Logan Phantom

Sholl Analysis

Show Color Surfaces

Sigma Filter

Simulate Color Blindness

Skeletonize3D

Slice Labeler

Snakuscule

Spheres and Tubes in 3D

Spline Deformation Generator

SpotCounter

SpotTracker

Spot Intensity Analysis

Spots colocalization (ComDet)

Squassh

StackReg

Stack Manipulation

StarDist

Statistical Region Merging

StereoMate

Stitching 2D/3D

Stochastic Denoise

Strahler Analysis

Straighten...

Sync Windows

Temporal-Color Code

Temporal Median

Test Java3D

Thread Killer

Time Lapse

Time Stamper

ToAST

TopoJ

TrackMate

Trainable Segmentation Plugin Implementation

Trainable Segmentation Plugin (deprecated)

Trainable Weka Segmentation

TrakEM2

TrakEM2 Archipelago

TransformJ

Transform Virtual Stack Slices

TreeJ

Tubeness

TurboReg

Tutorial Maker

UnwarpJ

Updater

Upload Sample Image

User ›Freetrashbox/DiameterJ

Using the Script Editor

VIB Protocol

VTEA

Vaa3d Reader

Vaa3d Writer

Video Editing

View5D

Volume Calculator

Volume Viewer

Watershed Algorithm (ImageJ plugin)

Wavelet Denoise

Xlib

Example 1

Example 2

Example 3

Example 4

Example 5

Howto - Authoring a page

Math test