2010 Summer Project Week EMSegmentation kmeans
Key Investigators
- BWH: Priya Srinivasan, Daniel Haehn, Sylvain Bouix
- UPenn: Kilian Pohl
Objective
To implement as one of the options: KMeans automatic initialization of tissue class intensities in the EMSegmentation Module in Slicer3.
Approach, Plan
Currently we have stand alone python scripts that take in 3 inputs: a template MRML scene, path to the T1 image, path to the atlas images. Intensities are computed using KMeans and a MRML scene is outputted which can directly be loaded in Slicer3 for segmentation. Registration of images (T1 and atlases) has to be done as a preprocessing step before providing as inputs to the python scripts. Meet up during NAMIC week and see how best this process can be integrated as one of the options in the current EMSegmentation pipeline in Slicer3.
Progress
Will be updated ...
Delivery Mechanism
This work will be delivered to the NA-MIC Kit as a Loadable module.
References:
- A Hierarchical Algorithm for MR Brain Image Parcellation. K. Pohl, S. Bouix, M. Nakamura, T. Rohlfing, R. McCarley, R. Kikinis, W. Grimson, M. E. Shenton, W. Wells. IEEE Transactions on Medical Imaging. 2007
