2012 Winter Project Week:GeomIndicesSlicer4

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Key Investigators

  • BWH: Peter Savadjiev


The objective is to port to Slicer4 an existing Slicer3 python module that implements the white matter geometry indices of Savadjiev et al. (2010).

Approach, Plan

The last remaining step of the port is to modify the XML interface of the Python module to match the requirements of Slicer 4.


At the June 2011 project week, a script was created for automatic testing of the module. Given a set of sample input and the corresponding pre-computed output, the script calls the module and verifies that the output produced by the module matches the correct pre-computed output.

At the January 2012 project week, I learned that the XML interface mechanism for CLI python modules has not been ported to Slicer4 yet. Steve promised to look into this. When this mechanism is ported to Slicer4, the module will be ready to be used in Slicer4.

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a Slicer4 python extension module.


  • Savadjiev P, Kindlmann GL, Bouix S, Shenton ME, Westin C-F. Local White Matter Geometry from Diffusion Tensor Gradients. Neuroimage 49, 3175-3186, 2010.