napari-vemseg

A simple plugin to do semi-automated segmentation within napari using vemseg built on XGBoost.

Installation¶

conda Installation and Environment Creation¶

To start with a conda environment must be created.

conda create -n vemseg-env python=3.8
conda activate vemseg-env

napari Instillation¶

We must then install napari:

pip install "napari[all]"

napari-vemseg Instillation¶

You can finally install napari-vemseg via pip:

conda install pyopencl
pip install napari-vemseg

Usage¶

Train VEMClassifier¶

Predict Using Pretrained VEMClassifier¶

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-vemseg" is free and open source software

Issues¶

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