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

ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)

Curve tracing ImageJ plugin

ImageJ convenience layer for N5

Modular, object-based analysis for ImageJ/Fiji

A Fiji plugin that automatically quantify synapses from multi-channel fluorescence microscopy images.

Detection of Molecules plugin for ImageJ, Utrecht University

ImgLib2 integration for ClearVolume

🔬 This is an ImageJ or Fiji plugin to identify, characterize, quantify and classify cells according to user-defined conditions.

ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files

spatial and temporal cross correlations in 1D and 2D for fluorescent microscopy (ImageJ plugin)

Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.

browsing large volumetric data

ImageJ plugin making kymographs of maximum or average intensity with wide lines, polylines, curves

Toolbox for post-correlation cryo-CLEM workflow developed at Chlanda Lab, Heidelberg University.

playing with BigVolumeViewer LUTs/gamma/render