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ImageJ2 Python Scripts

Introduction

This page is a primer of ImageJ2 only Python scripts. It means that the examples included here avoid IJ1 as much as possible, unless it’s really necessary.

Note that all the scripts of this page are links from this GitHub repository.

Scripts

Stack Projection

Apply Threshold

Crop an image

Rotate all the frames of a stack

Subtract a stack to its first image

Apply DOG Filter

Apply a mask

Retrieve objects/particles from a mask

Manual Simple Registration on Stack

Resources