cellshape-helper 0.0.1

3D shape analysis using deep learning

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Cellshape-helper is an easy-to-use tool to analyse the shapes of cells using deep learning and, in particular, 3D convolutional neural networks. The tool provides the ability to convert masks to point clouds.

To install

pip install cellshape-helper

Usage

Parameters

For developers

• Fork the repository
• Clone your fork

git clone https://github.com/USERNAME/cellshape-helper 

• Install an editable version (-e) with the development requirements (dev)

cd cellshape-voxel
pip install -e .[dev] 

• To install pre-commit hooks to ensure formatting is correct:

pre-commit install

• To release a new version:

Firstly, update the version with bump2version (bump2version patch, bump2version minor or bump2version major). This will increment the package version (to a release candidate - e.g. 0.0.1rc0) and tag the commit. Push this tag to GitHub to run the deployment workflow:

git push --follow-tags

Once the release candidate has been tested, the release version can be created with:

bump2version release