Surface/Edge Segmentation for White Matter

Support
1

Dear Community,

I’m working on segmented Brain MRI images (GM, WM, CSF), I would like to extract a continuous boundary for White matter to be able to test specific algorithms. Since WM maps are probability maps, I have difficulty to extract a linked continuous boundary. I have created as well some phantoms to help test my boundary extraction algorithms. Is there any tools in SLICER that can help in extracting a thin (1 voxel wide) 3D WM boundary?

Best Regards
Hassan Farhat

2

You can threshold the probability map to get a thick boundary and then thin it to a single-voxel surface using “Extract skeleton” module (Skeleton type: 2D; Do not prune branches: enabled).