napari-trackpy

Plugin to do trackpy particle tracking on 3D microscopy data within napari. Currently only tracking of XYZ data is implemented.

Installation

You can install napari-trackpy via pip:

pip install napari-trackpy

To install latest development version :

pip install git+https://github.com/rhoitink/napari-trackpy.git

How to use this plugin?

• Load your XYZ data (using napari-aicsimageio)
• Make sure to split channels into different layers, such that the layer only contains 3D (XYZ) data
• Open the widget for the tracking plugin via Plugins > XYZ particle tracking
• Optimize the tracking settings for your dataset, for an extensive description of the settings, visit this tutorial
• Save your tracking data into the .xyz file format using Ctrl+S (on the points layer) or via the menu File > Save Selected Layer(s)...

Contributing

Contributions are very welcome. Tests can be run with tox.

License

Distributed under the terms of the MIT license, "napari-trackpy" is free and open source software

Issues

If you encounter any problems, please file an issue along with a detailed description.