Slicer Open Anatomy extension

Slicer Open Anatomy extension provides tools for loading, manipulating, exporting and visualizing the Open Anatomy Project's atlases in 3D Slicer.

The Open Anatomy Project aims to revolutionize the anatomy atlas by utilizing open data, fostering community-based collaborative development, and freely distributing medical knowledge. The project has several different digital anatomy atlases, including:

• Mauritanian Anatomy Laboratory Thoracic Atlas
• SPL/NAC Brain Atlas
• SPL Liver Atlas
• SPL Head and Neck Atlas
• SPL Inner Ear Atlas
• SPL Knee Atlas
• SPL Abdominal Atlas

Modules

OpenAnatomy Export

This module exports a model hierarchy or segmentation node from 3D Slicer into a single glTF or OBJ file, including all the model colors and opacities; and for glTF also model hierarchy and model names.

AtlasEditor

This module is for editing and simplifying Open Anatomy's atlases. Users can select and organize the structures/labels into groups that is most relevant to their particular field or area of study using a hierarchy JSON schema.

Installation

1. Install and open 3D Slicer (https://download.slicer.org).
2. Open the Extension Manager and download 'SlicerOpenAnatomy' extension.
3. Restart 3D Slicer.

Acknowledgements

Andras Lasso (PerkLab, Queen's University)
Csaba Pinter (PerkLab, Queen's University)
Michael Halle (SPL, Harvard Medical School)
Andy Huynh (ISML, The University of Western Australia)