Object Detection with Star-convex Shapes
This project provides the napari plugin for StarDist, a deep learning based 2D and 3D object detection method with star-convex shapes. StarDist has originally been developed (see papers) for the segmentation of densely packed cell nuclei in challenging images with low signal-to-noise ratios. The plugin allows to apply pretrained and custom trained models from within napari.
Installation & Usage
Install the plugin with
pip install stardist-napari or from within napari via
Plugins > Install/Uninstall Package(s)…. If you want GPU-accelerated prediction, please read the more detailed installation instructions for StarDist.
You can activate the plugin in napari via
Plugins > StarDist: StarDist. Example images for testing are provided via
File > Open Sample > StarDist.
For a more detailed demonstration of the plugin, please watch this short video.
If you use this plugin for your research, please cite us.
Troubleshooting & Support
- The image.sc forum is the best place to start getting help and support. Make sure to use the tag
stardist, since we are monitoring all questions with this tag.
- For general questions about StarDist, it's worth taking a look at the frequently asked questions (FAQ).
- If you have technical questions or found a bug, feel free to open an issue.
- 28 June 2021
- 01 June 2021
- 4 - Beta
- Stars: 13
- Forks: 3
- Issues + PRs: 1
Python versions supported:
- OS Independent
- stardist (>=0.7.0)
- napari (>=0.4.8)
- magicgui (>=0.2.9)