Projects/Structural/2007 Project Week EMSegmentation Validation

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Brain segmentation using EMSegment and ModelMaker in Slicer3.
Brain segmentation using EMSegment and ModelMaker in Slicer3.

Key Investigators

  • Kitware: Brad Davis
  • BWH: Sylvain Bouix


Our goal is to begin a validation study that will establish the accuracy and dependability of the Slicer3 EMSegment module. This objective is part of a larger, ongoing development effort for this module.

Approach, Plan

The validation study is based on a statistical comparison with results from earlier implementations of the EMSegment algorithm. The study will be carried out by members of the Psychiatry Neuroimiging Laboratory (PNL) at Brigham and Women's Hospital, on their data, using the newly developed command line version of the EMSegment algorithm. Kitware will provide software support and assist if problems arise with the results. Details are provided in the reference below. Our plan for the project week is to train the PNL staff on use of the new EMSegment tools, coordinate the validation study, and work out any bugs/interface problems as early as possible.


Preparations: develop EMSegment command line executable (DONE), add intensity normalization to module (Done)

Discussions: registration in EMSegmenter (design, coding UNDERWAY), application to white matter lesions (Jeremy Bockholt, Mark Scully at MIND, Kilian Pohl)

Updates: allow user to specify atlas files from the command line (DONE)

To Do: begin validation study