aiod-napari

AIoD Napari Plugin

Napari plugin part of AI OnDemand (AIoD) to provide an accessible interface for running deep learning models on images via our Nextflow pipeline.

Installation

See our latest installation information in our documentation!

In general, you should see the official Napari installation instructions first to ensure Napari is installed with an appropriate Qt backend.

uv

A uv.lock file is provided for smoother installation:

uv add aiod_napari

Conda

We have also provided a conda environment file to install all the dependencies for this plugin. To install the environment, run the following command:

conda env create -f ai-od.yml

Getting Started

For a step-by-step walkthrough, please see our First Segmentation guide.

Usage

For general usage of the plugin, see the documentation.

Contributing

Contributions are very welcome! Please see our AIoD Developer Guide for general advice and information.

Development setup

Install with test dependencies using either:

uv sync                        # uv dependency group (dev)
pip install -e ".[testing]"    # pip/tox extra (testing)

Both install the same test dependencies (pytest, tox, napari[qt], ...), but allow for either uv or plain pip/tox workflows. (Note that, at present, the CI uses the testing extra via tox.)

Issues

If you encounter any problems, please raise an issue along with a detailed description!