2013 Summer Project Week:TractAtlasCluster

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  Projects List

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  Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.

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  Regression of FA data; solid line represents the mean and dotted lines the standard deviation.

Key Investigators

• BWH: Lauren O'Donnell
• Slicer gurus
• Open source/python/vtk gurus.

Objective

The goal is to work on Slicer integration and user packaging to enable open-source release of Python tract atlasing and clustering code.

Approach, Plan

Our python package includes code implementing tract clustering, atlas labeling, registration, and fMRI-DTI modeling as part of the atlas. References are below. Our plan for the project week is to focus on Slicer compatibility and user accessibility/cleanup/documentation of the code.

Progress

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

1. ITK Module
2. Slicer Module
   1. Built-in
   2. Extension -- commandline
   3. Extension -- loadable
3. Other (Please specify) YES: eventual plan is an extension but depends on packages not yet in Slicer python.

References

• Fiber clustering versus the parcellation-based connectome

LJ O’Donnell, AJ Golby, CF Westin NeuroImage 2013

• Unbiased Groupwise Registration of White Matter Tractography

LJ O’Donnell, WM Wells III, AJ Golby, CF Westin Medical Image Computing and Computer-Assisted Intervention–MICCAI 2012, 123-130

• fMRI-DTI modeling via landmark distance atlases for prediction and detection of fiber tracts

LJ O'Donnell, L Rigolo, I Norton, WM Wells III, CF Westin, AJ Golby NeuroImage 60 (1), 456-70

• Automatic tractography segmentation using a high-dimensional white matter atlas

LJ O'Donnell, CF Westin Medical Imaging, IEEE Transactions on 26 (11), 1562-1575