Metadata-Version: 2.1
Name: brainglobe-segmentation
Version: 1.2.5
Summary: Segmentation of anatomical structures in a common coordinate space
Author-email: "Adam Tyson, Horst Obenhaus" <code@adamltyson.com>
License: BSD-3-Clause
Project-URL: Homepage, https://brainglobe.info/
Project-URL: Source Code, https://github.com/brainglobe/brainglobe-segmentation
Project-URL: Bug Tracker, https://github.com/brainglobe/brainglobe-segmentation/issues
Project-URL: Documentation, https://brainglobe.info/documentation/brainglobe-segmentation/index.html
Project-URL: User Support, https://forum.image.sc/tag/brainglobe
Classifier: Development Status :: 4 - Beta
Classifier: Framework :: napari
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.10
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Requires-Python: >=3.10
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: brainglobe-atlasapi>=2.0.1
Requires-Dist: brainglobe-napari-io>=0.3.0
Requires-Dist: brainglobe-utils>=0.5.0
Requires-Dist: napari>=0.4.5
Requires-Dist: numpy<2.0
Requires-Dist: pandas[hdf5]
Requires-Dist: qtpy
Requires-Dist: scikit-image
Requires-Dist: scipy
Requires-Dist: tifffile
Provides-Extra: dev
Requires-Dist: black; extra == "dev"
Requires-Dist: gitpython; extra == "dev"
Requires-Dist: pre-commit; extra == "dev"
Requires-Dist: pytest; extra == "dev"
Requires-Dist: coverage; extra == "dev"
Requires-Dist: pytest-cov; extra == "dev"
Requires-Dist: pytest-qt; extra == "dev"
Requires-Dist: napari-time-slicer; extra == "dev"

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# brainglobe-segmentation

Segmentation of anatomical structures in a common coordinate space

## Installation
**PyPI**
```
pip install brainglobe-segmentation
```

**conda**
```
conda install -c conda-forge brainglobe-segmentation
```

N.B. Your data will need to be registered to an anatomical atlas first.

## Usage
See [user guide](https://brainglobe.info/documentation/brainglobe-segmentation/index.html).

## 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](https://brainglobe.info/contact.html).

## Citing brainglobe-segmentation

If you find brainglobe-segmentation useful, and use it in your research, please let us know and also cite the paper:

> Tyson, A. L., V&eacute;lez-Fort, M.,  Rousseau, C. V., Cossell, L., Tsitoura, C., Lenzi, S. C., Obenhaus, H. A., Claudi, F., Branco, T.,  Margrie, T. W. (2022). Accurate determination of marker location within whole-brain microscopy images. Scientific Reports, 12, 867 [doi.org/10.1038/s41598-021-04676-9](https://doi.org/10.1038/s41598-021-04676-9)
