Image process framework based on plugin like imagej, it is esay to glue with scipy.ndimage, scikit-image, opencv, simpleitk, mayavi...and any libraries based on numpy

QuPath - Open-source bioimage analysis for research

Read and write TIFF files.

A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.

Collection of mathematical morphology methods and plugins for ImageJ

ImageJS--Image analysis in the browser with ImageJ

Read and write ImageJ ROI format.

sciview is a tool for visualization and interaction with ND image and mesh data

ImageJ functions and macros for working with thermal image files

KNIME Image Processing Extension

The ImageJ framework for quantification of neuronal anatomy

Fully Ported to Python from ImageJ's Background Subtractor. Rolling ball and sliding paraboloid background subtraction algorithms.

Detect ridges / lines with imagej

Tiny Image in Javascript - Edge Detection Algorithms

ImageJ macros and scripts written at the imaging facility MRI

Use ImageJ functionality from napari

Matlab function to import ROIs from ImageJ

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

Z-stack Depth Colorcode ImageJ FIJI plugin

Plugins for ImageJ - color space conversions and color calibration