iblatlas

Tools to manipulate hierarchical 3D representations of the mouse brain anatomy for electrophysiolgy experiments. The tools are mainly using the Allen CCF although some other atlases can be used.

This repository uses minimal requirements, based of standard matplotlib, numpy and scipy libraries, to the exclusion of more complex visualization tools such as pyqt.

Documentation

Full package documentation

Notebooks and examples

Installation

uv pip install iblatlas

For GUI features, you'll need to install with optional dependencies: uv pip install iblatlas[gui]

Contributing

Changes are merged by pull requests. Release checklist:

  • Update version in iblatlas/__init__.py
  • Update CHANGELOG.md
  • Merge changes to the main branch on GitHub
  • Create a new tag on main and push it: git tag <version> && git push origin <version>
  • Create a GitHub release from that tag (via the GitHub UI or gh release create)

Once a GitHub release is published the package is uploaded to PyPI automatically via GitHub Actions.

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Newer release available (1.2.0)

1 maintainer

PyPI data
Data sourced directly from PyPI's database.
Avatar for ibl from gravatar.com ibl

Credits

Author: IBL staff

License

MIT License (MIT License)

Requires

Python >=3.10

Provides Extra

gui

Classifiers

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