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'''Objective:''' Semi Automatic Segmentation and parcellation for the Basal Ganglia.

'''Progress:''' We have developed an algorithm for delineation of the striatum into 5 physiological subregions (pre/post caudate, pre/post putamen, and nucleus accumbens) while requiring only minimal user input. We have implemented this algorithm from the geometric rules for delineating the striatum as defined by our Core 3 collaborator, Dr. James Levitt of the PNL, into a 3D SLICER module. The current run time for the algorithm is ~20 seconds after the initial user input. The user inputs a label map of the full striatum, the most superior/dorsal voxel of the putamen on each slice, and the anterior commisure voxel (see figure below). From these, the labelmap is delineated into the aforementioned subregions. The figure below shows a 3D model of the left and right striatum delineated into the five subregions.

<div class="thumb tright"><div style="width: 182px">[[Image:Striatum1.png|[[Image:180px-Striatum1.png]]]]<div class="thumbcaption"><div class="magnify" style="float: right">[[Image:Striatum1.png|[[Image:magnify-clip.png|Enlarge]]]]</div></div></div></div><div class="thumb tright"><div style="width: 182px">[[Image:Striatum2.png|[[Image:180px-Striatum2.png]]]]<div class="thumbcaption"><div class="magnify" style="float: right">[[Image:Striatum2.png|[[Image:magnify-clip.png|Enlarge]]]]</div></div></div></div>

'''Key Investigators:'''

* GTech: Ramsey Al-Hakim, Delphine Nain, Allen Tannenbaum.
* PNL: Sylvain Bouix, James Levitt, Marc Niethammer, Martha Shenton.
* Kitware: Luis Ibanez
* Isomics: Steve Pieper

'''Links:'''

* [[DBP:Harvard:Collaboration:GTech|Harvard - Rule-based Segmentation]]
* [[Algorithm:GATech#Rule_Based_Segmentation_Slicer_Modules||Georgia Tech Summary Page]]