Prairie 2-Photon Microscopy Data Manager for recursive batch processing ans analysis with Fiji

ImageJ plugin containing a collection image segmentation algorithms.

ImageJ Plugin for Automated Cancer Cell Vessel Co-option Analysis

ImageJ plugin for handling NDPI files.

Write SciJava scripts in Jupyter notebook!

☕ 🐍 🔬 🔖 📑 A mavenized package of the Open Microscopy Environment "ome-model" Python module to be used in ImageJ2.

ImageJ2 macro library with variables and functions

A Spark-interface for the io.scif and other libraries to take advantage of the ImageJ2 ecosystem.

🐍☕📑 Jython package for using SciJava's LogService for logging.

Mageek is an ImageJ Java plugin to batch process microscope images

IHC scoring of multi-channel images

☕ 🐍 🔬 Package for processing metadata from various light-microscopy related data formats.

A collection of scripts related to Micro-Manager.

Cell segmentation of multi-channel images

The Cx3D modeling framework in SciView and SNT

🔬🍸 Home of the ImageJ BAR: A collection of Broadly Applicable Routines for ImageJ

Matlab function to import ROIs from ImageJ

The ImageJ framework for quantification of neuronal anatomy

KNIME Image Processing Extension