MTrackJ Tutorial: How to Quantify Particle Motion Quantifying how particles, cells, or organelles move is essential in modern bioimage informatics. MTrackJ is a powerful, lightweight ImageJ/Fiji plugin designed for manual and semi-automatic tracking of moving objects in biological images. This tutorial provides a streamlined, step-by-step workflow to install MTrackJ, track particles, and export your motion data. 1. Installation and Setup
Before analyzing your data, you need to add the MTrackJ plugin to your ImageJ or Fiji ecosystem. Open Fiji/ImageJ: Ensure your software is up to date.
Open Update Manager: Navigate to Help > Update… from the main menu.
Manage Update Sites: Click the Manage update sites button in the bottom left.
Select MTrackJ: Scroll through the list, check the box next to MTrackJ, and click Close.
Apply Changes: Click Apply changes in the main updater window to download the plugin.
Restart Software: Restart Fiji/ImageJ to initialize the newly installed plugin. 2. Preparing Your Image Stack
Proper image scaling is critical for translating pixel displacements into physical measurements like micrometers.
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