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Module Name

Skull Stripper

Module UI
Input T1 Image
Brain mask as contour
Brain surface

General Information

Module Type & Category

Type: CLI

Category: Segmentation

Authors, Collaborators & Contact

  • Author: Xiaodong Tao
  • Contact: taox at

Module Description


Examples, Use Cases & Tutorials

Quick Tour of Features and Use



No other modules are required for this module.

Known bugs


Usability issues

Developed and tested on T1 weighted images from OASIS database. Some limited test has been done on T2 weighted images. In some cases, when partial volume artifact is severe, the algorithm does not find the accurate brain boundary. This can be used for most of visualization tasks and applications where accuracy in cortex is not critical.

Source code & documentation

Source Code:

XML Description:


More Information


This work is part of the National Alliance for Medical Image Computing (NAMIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Implementation of the Fuzzy Classification was contributed by Dr. Ming-Ching Chang from GE Research.

OASIS datasets were used to generate images on this page.


  • Xiaodong Tao, Ming-ching Chang, “A Skull Stripping Method Using Deformable Surface and Tissue Classification”, SPIE Medical Imaging, San Diego, CA, 2010.
  • Ming-ching Chang, Xiaodong Tao “Subvoxel Segmentation and Representation of Brain Cortex Using Fuzzy Clustering and Gradient Vector Diffusion”, SPIE Medical Imaging, San Diego, CA, 2010.