README.md

Back to Projects List

Neuroanatomical Segmentation

Key Investigators

• Sylvain Bouix (BWH)
• Jarett Rushmore (Boston University)
• Kyle Sunderland (Queen's University)
• Andras Lasso (Queen's University)

Project Description

Objective

1. Design and create a dedicated neuroanatomy segmentation module
2. Adopt an approach for sulcal definition

Approach and Plan

• Sulcal definition

  1. Load freesurfer surfaces into Slicer
  2. Using the white matter surfaces, draw two points in Slicer, each at the base of a sulcus
  3. Connect the two points with a line at the bottom of the sulcus (i.e., a minimum value)
  4. Assign the line to a specific sulcal identity (with it's associated ontology, and related reference files)

• Implement a constraint option for markups to force them to be on a surface (i.e. model node, segmentation, or another markup)

Progress and Next Steps

• Custom module specific to neuroanatomical General Segmentation

1. Presented a mockup module
2. Most functionalities are already in Segment Editor
3. Plan is to modify the design to poptimize speed
4. Presented real-time histogram generation

• New functionalities for Surface Assisted Cortical Parcellation

1. Identified requirements to draw lines in sulcal pits
2. Presented the underlying principles for cortical parcellation (cortical ribbon is being parcellted using a combination of fiducial landmarks representing a set of planes and sulcal lines)

Illustrations

• Sulci tracing

Background and References