napari-workflows

napari-workflows

This repository contains data structures for managing image processing workflows in napari. There are no user interface in this repository as it serves as backend. Multiple front-ends for managing workflows are available in these napari plugins:

• napari-assistant
• napari-lattice
• napari-script-editor
• napari-workflow-optimizer
• napari-workflow-inspector

Using workflows, you can combine functions from these napari plugins in workflows:

• devbio-napari
• napari-accelerated-pixel-and-object-classification
• napari-cupy-image-processing
• napari-segment-blobs-and-things-with-membranes
• napari-simpleitk-image-processing
• napari_pyclesperanto_assistant

If you want to learn how these workflows function under the hood, the demo notebook gives some insights.

This repository was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

Installation

You can install napari-workflows via pip:

pip install napari-workflows

Contributing

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.

License

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

Acknowledgements

This project was supported by the Deutsche Forschungsgemeinschaft under Germany’s Excellence Strategy – EXC2068 - Cluster of Excellence "Physics of Life" of TU Dresden. This project has been made possible in part by grant number 2021-240341 (Napari plugin accelerator grant) from the Chan Zuckerberg Initiative DAF, an advised fund of the Silicon Valley Community Foundation.

Issues

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