Introduction

Manually segment 1/2/3D structures for volumetric analysis

brainreg-segment is a companion to 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).

Installation

brainreg-segment comes bundled with brainreg, so see the brainreg installation instructions. 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.