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3D Slicer segmentation recipes

Recipes for common medical image segmentation tasks using 3D Slicer


Important: This recipe is now obsolete. It is replaced by a new recipe that uses Wrap solifidy effect. The new recipe is much simpler and provides comparable or better results as this one.

Usually there is strong contrast between tissue and air, therefore segmenting the skin surface should be easy, except there may be air inside body part or some tissues or fluids may have image intensity similar to air. Therefore, simple global thresholding may not always work.



Air region undersegmented.

Air region oversegmented.

No leaks anymore.

Inverted air segment is tissue segment.

Artifacts removed.

Speckles removed.

Smoothed result.

Final result:

Smoothed result.