There are 3 repositories under imagej-plugins topic.
ImageJ macros and scripts written at the imaging facility MRI
ImageJ's plugin for directional analysis in images: color-coded analysis, distribution of orientation, vector field, keypoint detection
Flow-Registration toolbox for 2P motion compensation
Collaborative Approach for eNhanced Denoising under Low-light Excitation
Image processing software for textbooks by W. Burger & M. Burge
Detection of Molecules plugin for ImageJ, Utrecht University
ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)
ImageJ library to detect and analyse connected components (blobs) in binary images
Error Level Analysis (ELA) in ImageJ
Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.
Raw Bayer pattern to color image converters
ImageJ plugin to read xrm files.
A plugin to combine power of mouse and keyboard control with image processing and analysis tools in ImageJ
sbt-imagej is an SBT (Simmple Build Tool) plugin that that helps with development of ImageJ plugins
ImageJ scripts for stereology and morphometry
ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files
A set of ImageJ plugins to quantify dynamics, morphology, and fluorescence of microglial cells.
Fiji plugins for the creation of binary and semantic masks from ROIs in the RoiManager. Works with stacks too.
v0.1.0, Adaptive Median fiter - imageJ plugin
EVAnalyzer 1 - EV analyzing plugin for Fiji
This plugin segments and classify diffusion trajectories
Digital Holographic Microscopy plugin for ImageJ. Allows realistic simulation and real-time reconstruction of single-shot holograms.
ImageJ plugin making kymographs of maximum or average intensity with wide lines, polylines, curves
Fast local thickness map plugin for ImageJ/Fiji
😎 Awesome lists about ImageJ Plugins!
ImageJ Plugin Library for 2D reconstruction (back-projection and filtered bp)
Extension for ImageJ (Fiji) by BIA segmentation methods as plugins and some other useful API for image segmentation.
This is an easy to use active contours api for Fiji(ImageJ).