TrackMate is your buddy for your everyday tracking.
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Updated
Aug 29, 2024 - Java
ImageJ is an open source Java image processing program inspired by NIH Image.
It runs on any computer with a Java 1.8 or later virtual machine.
Downloadable distributions are available for Windows, Mac OS X and Linux.
ImageJ has a strong, established user base, with thousands of plugins and macros for performing a wide variety of tasks.
Fiji is a "batteries-included" distribution of ImageJ, bundling many plugins which facilitate scientific image analysis.
TrackMate is your buddy for your everyday tracking.
The U-Net Segmentation plugin for Fiji (ImageJ)
Plugins for bone image analysis
A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification
ImageJ convenience layer for N5
Z-stack Depth Colorcode ImageJ FIJI plugin
Legacy project, now part of https://github.com/morphonets/SNT. Bitmap morphometry of neuronal arbors through Sholl
Fiji plugins for pQCT image analysis.
Detection of Molecules plugin for ImageJ, Utrecht University
A Fiji plugin that automatically quantify synapses from multi-channel fluorescence microscopy images.
This plugin segments and classify diffusion trajectories
Curve tracing ImageJ plugin
ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)
An ImageJ PlugIn for cell segmentation in an embryo of c.elegans
FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets
Modular, object-based analysis for ImageJ/Fiji
Scripts for executing Fiji plugin BoneJ in headless mode in Python to compute bone microstructure metrics
ObjCounter ImageJ plugin for object segmentation and counting
ImageJ macros and plugins.
NanoTrackJ is an ImageJ/Fiji plugin to characterize the size of nanoparticles by its diffusion trajectories.