2008 Winter Project Week GroupwiseReg

Return to 2008_Winter_Project_Week

Figure 1: On the left is shown a stack of images and a sample pixel stack around a cortical region. On the left is shown the Gaussian(blue) fittet to a real sample from the dataset we used along with the non-parametric density estimate(red). Note that the distribution is bi-modal because of white matter-gray matter transaction.

Key Investigators

• MIT: Serdar Balci, Polina Golland
• Kitware: Brad Davis
• SCI: Casey Goodlett

Objective

The goal of this project is to expand the NAMIC Software Kit with the addition of an image-based atlas building algorithm that was developed by Polina Golland’s lab at MIT. The basic functionality of this software will be demonstrated to the NAMIC community at the January 2008 NAMIC all-hands meeting. A secondary goal is to begin the process of gathering usability and interface requests from targeted clinical collaborators. It is intended that users’ requests will be incorporated in to a future project aimed at tailoring this software for widespread NAMIC use.

See our Algorithm Project Page for more details.

Approach, Plan

The registration algorithms are already available as C++ sourcecode. We plan to integrate them into the NAMIC community by:

• Adapt sourcecode to utilize the command-line parsing mechanism that was designed for Slicer3 external modules. This will simplify the process of incorporating the algorithm into a Slicer3 module, provide a standardized look-and-feel to the command-line executable, and simplify the process of adding or removing parameters in the future.

• Create a simple Slicer3 graphical user interface (external module) that allows a user to generate an atlas from their data. Algorithm data input and output directories will be specified by the user. A simplified subset of the algorithm parameters will be available for the users to modify within the module’s graphical user interface. In order to reduce complexity for the current design iteration, the algorithm will not be coordinated with Slicer3 data loading and saving.

• User Feedback. During the January 2008 NAMIC all-hands meeting we will solicit feedback on this project from potential clinical collaborators. This data will be recorded on the project wiki page and should steer future development efforts for this project.

Progress

Lead Up Work

Jan 2008 Project Week

References

• S.K. Balci, P. Golland, M.E. Shenton, W.M. Wells III. Free-Form B-spline Deformation Model for Groupwise Registration. In Proceedings of MICCAI 2007 Statistical Registration Workshop: Pair-wise and Group-wise Alignment and Atlas Formation, 23-30, 2007.