BrainGlobe
Shared general purpose tools for the BrainGlobe project
Shared general purpose tools for the BrainGlobe project, including citation generation.
Installation
pip install brainglobe-utils
To also include the dependencies required for Qt widgets, use:
pip install brainglobe-utils[qt]
For development, clone this repository and install the dependencies with:
pip install -e .[dev]
Seeking help or contributing
We are always happy to help users of our tools, and welcome any contributions. If you would like to get in contact with us for any reason, please see the contact page of our website.
Citations for BrainGlobe tools
brainglobe-utils comes with the cite-brainglobe command line tool, to write citations for BrainGlobe tools for you so you don't need to worry about fetching the data yourself.
You can read about how to use the tool on the documentation website.
Version:
- 0.7.0
Last updated:
- 2025-03-10
First released:
- 2024-07-31
License:
- MIT
Python versions supported:
Operating system:
- Information not submitted
Requirements:
- brainglobe-atlasapi>=2.0.1
- brainglobe-space
- configobj
- natsort
- nibabel>=2.1.0
- numba
- numpy
- dask
- pandas
- psutil
- pyarrow
- PyYAML
- scikit-image
- scipy
- slurmio
- tifffile
- tqdm
- qt-niu
- qtpy; extra == "qt"
- superqt; extra == "qt"
- brainglobe-utils[qt]; extra == "napari"
- napari[all]; extra == "napari"
- black; extra == "dev"
- coverage; extra == "dev"
- mypy; extra == "dev"
- pre-commit; extra == "dev"
- pyqt5; extra == "dev"
- pytest-cov; extra == "dev"
- pytest-qt; extra == "dev"
- pytest-mock; extra == "dev"
- pytest; extra == "dev"
- ruff; extra == "dev"
- scikit-image; extra == "dev"
- setuptools_scm; extra == "dev"
- tox; extra == "dev"
- pooch; extra == "dev"
- brainglobe-utils[napari]; extra == "dev"