SlicerNeuroSegmentation: HOA 2.0 Neurosegmentation And Neuroparcellation

SlicerNeuroSegmentation is an extension for 3D Slicer designed to provide access to tools for segmenting neurological structures.

Modules

• NeuroSegment

  This module provides access to tools for editing MRI images. Segments that are created using the module are automatically populated with the structures that need to be segmented.

• NeuroSegment Parcellation

  This module provides tools that facilitate the segmentation of structures in the cerebral cortex by defining planes and tracing along sulci that are represented 3D mesh imported from FreeSurfer.

• Curve Comparison

  This module evaluates the curve surface pathfinding parameters to find the parameters that perform optimally compared to a ground truth curve.

User guides

• Neurosegmentation

  The manual for performing segmentations with the Neurosegmentation module is located here.

• Neuroparcellation

  Instructions on the workflow using the Neuroparcellation module can be found here.

  Additional information on the interface can be found here.

Support

If you encounter any issues or have any questions, feel free to submit an issue here.

Citation

Rushmore R.J., Sunderland, K., Carrington H., Chen J., Halle M., Lasso A., Papadimitriou G., Prunier N., Rizzoni E., Vessey B., Wilson-Braun P., Rathi Y., Kubicki M., Bouix S., Yeterian E. and Makris N. (2022) Anatomically curated segmentation of human subcortical structures in high resolution magnetic resonance imaging: An open science approach. Front. Neuroanat. 16:894606. doi:10.3389/fnana.2022.894606

Acknowledgements

Development of SlicerNeuroSegmentation was partially funded by Brigham and Women's Hospital through NIH grant R01MH112748