Metadata-Version: 2.1
Name: brainreg-segment
Version: 0.2.4
Summary: Manual segmentation of 3D brain structures in a common anatomical space
Home-page: UNKNOWN
Author: Adam Tyson, Horst Obenhaus
Author-email: adam.tyson@ucl.ac.uk
License: UNKNOWN
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Operating System :: POSIX :: Linux
Classifier: Operating System :: Microsoft :: Windows :: Windows 10
Classifier: Framework :: napari
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3.7
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Requires-Python: >=3.7
Description-Content-Type: text/markdown
Requires-Dist: numpy
Requires-Dist: tables
Requires-Dist: scikit-image
Requires-Dist: pandas
Requires-Dist: napari[pyside2] (>=0.4.5)
Requires-Dist: napari-plugin-engine (>=0.1.4)
Requires-Dist: imlib (>=0.0.26)
Requires-Dist: dask (>=2.15.0)
Requires-Dist: napari-brainreg
Requires-Dist: imio
Provides-Extra: dev
Requires-Dist: black ; extra == 'dev'
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Requires-Dist: flake8 ; extra == 'dev'

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# brainreg-segment
Segmentation of 1/2/3D brain structures in a common anatomical space

`brainreg-segment` is a companion to [`brainreg`](https://github.com/brainglobe/brainreg) allowing manual segmentation of regions/objects within the brain (e.g. injection sites, probes etc.) allowing for automated analysis of brain region distribution, and visualisation (e.g. in [brainrender](https://github.com/BrancoLab/brainrender)).

## Installation

brainreg-segment comes bundled with [`brainreg`](https://github.com/brainglobe/brainreg), so see the [brainreg installation instructions](https://docs.brainglobe.info/brainreg/installation). 

brainreg-segment can be installed on it's own (`pip install brainreg-segment`), but you will need to register your data with brainreg first. 

## Usage

See [user guide](https://docs.brainglobe.info/brainreg-segment/user-guide)

