TrackMate is your buddy for your everyday tracking.
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Updated
Jun 27, 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)
FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets
Z-stack Depth Colorcode ImageJ FIJI plugin
Plugins for bone image analysis
Detection of Molecules plugin for ImageJ, Utrecht University
A Fiji plugin that automatically quantify synapses from multi-channel fluorescence microscopy images.
Curve tracing ImageJ plugin
ImageJ convenience layer for N5
ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)
Modular, object-based analysis for ImageJ/Fiji
🔬 This is an ImageJ or Fiji plugin to identify, characterize, quantify and classify cells according to user-defined conditions.
Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.
ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files
spatial and temporal cross correlations in 1D and 2D for fluorescent microscopy (ImageJ plugin)
Toolbox for post-correlation cryo-CLEM workflow developed at Chlanda Lab, Heidelberg University.
This plugin segments and classify diffusion trajectories
ImageJ plugin making kymographs of maximum or average intensity with wide lines, polylines, curves
EVAnalyzer 1 - EV analyzing plugin for Fiji
Legacy project, now part of https://github.com/morphonets/SNT. Bitmap morphometry of neuronal arbors through Sholl