A simple plugin for 3D vessel segmentation

License PyPI Python Version tests codecov napari hub

A simple plugin for 3D vessel segmentation of LSFM images

This napari plugin can be used to optimize the segmentation parameters for the main VesselExpress software platform.


The easiest way to install the plugin is to open napari, go to Plugins, then Install/Uninstall plugins. You will be able to find the plugin by name "vessel-express-napari".

Or, you can install vessel-express-napari via pip:

pip install vessel-express-napari

To install latest development version :

pip install git+


We provide a quick start guide to explain the important pieces of this plugin. Suggestions and feature quests are very welcomed.


Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.


Distributed under the terms of the BSD-3 license, "vessel-express-napari" is free and open source software


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


  • 0.0.9

Last updated:

  • 28 April 2023

First released:

  • 17 May 2022


Supported data:

  • Information not submitted

Plugin type:

Open extension:

GitHub activity:

  • Stars: 2
  • Forks: 2
  • Issues + PRs: 16

Python versions supported:

Operating system:


  • napari-plugin-engine (>=0.1.4)
  • numpy
  • itk
  • scikit-image
  • aicssegmentation

Sign up to receive updates