A simple plugin for semi-automated segmentation of volume electron microscopy images.
Project description
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.
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Source Distribution
napari-vemseg-0.0.4.tar.gz
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