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=Neurosurgical Planning for Image Guided Therapy using Slicer3=

==Overview==

This tutorial reviews Slicer3's Image Guided Therapy capabilities using the example of preoperative planning for neurosurgery.  It covers how to perform multiple tasks in Slicer3, including:
* Image registration
* Segmentation and model making
* Diffusion Tensor Imaging and tractography
* Using an atlas

==Tutorial Materials==
* Tutorial slides for the neurosurgical planning tutorial:  [[Media:ImageGuidedTherapyPlanning.pdf | pdf (recommended)]] or [[Media:ImageGuidedTherapyPlanning.ppt | ppt]]
* [[Media:NeurosurgicalPlanningTutorialData.zip | Neurosurgical planning tutorial dataset]] - contains:
** Patient dataset
** SPL-PNL brain atlas
** MRML scene registering the patient with the atlas
** MRML scene registering the patient's anatomical MRI with the patient's DTI
** MRML scene registering of precomputed tensor data for the patient's DTI

==Bonus Materials==
This is a subset of the data above, which demonstrates some of the capabilities of the tractography package in Slicer 3.3. Snapshots 1-4 demonstrate a progression of the analysis of the interrelation of the morphology and DTI.
#general view
#location of the precentral gyrus based the surface of the white matter
#peritumoral seeding of tractography: The general appearance is that of a "ball of spaghettis" with two tentacles,
#exploration of the "tentacles": fiducial based seeding in the cerebral peduncle and in the vicinity of Brocca's area reveal potential corticospinal tract and acuate fasciculus
[[media:NeurosurgDTIdemo2008.zip|Original MRML scene and data in a zip file]], [[media:AmigoBrochure112008.zip|modified version]].

==Software Installation Instructions==
Go to the [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Install-Slicer3 Slicer3 Install] site.

==People==
* [http://www.spl.harvard.edu/pages/People/dpace Danielle Pace]
* [http://www.spl.harvard.edu/pages/People/noby Nobuhiko Hata]