2009 Winter Project Week:RegionalCorticalThicknessPipeline

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Home < 2009 Winter Project Week:RegionalCorticalThicknessPipeline
Screenshot of the application
Pipeline description

Key Investigators

  • UNC: Cedric Mathieu, Clement Vachet, Martin Styner, Heather Cody Hazlett
  • GE: Jim Miller


We have developped an end-to-end application within Slicer3 allowing individual analysis of regional cortical thickness. We are also developing an end-to-end application allowing group comparison.

Such a workflow applied to the young brain (2-4 years old) is our goal in order to start a longitudinal study of early brain development in autism (UNC DBP).

See our Roadmap for more details.

Approach, Plan

Our plan for the project week is to improve the integration of the regional cortical thickness module within Slicer:

  • Specific directory within Slicer3 tree to store external modules available on NITRC
  • Specific directory within Slicer3 tree to store batchmake xml description files (.bmm)

Meanwhile, we will continue to develop the KWWidgets application allowing group comparison.


During the week, a better integration of the module in Slicer3 was done.

We also worked on the quality control. A "mrml" scene is created at the end of the pipeline. This scene contains different Slicer3 snapshots representing the different steps. There is still a small bug with the mrml scene but it is close to be fixed.