Difference between revisions of "IGT:ToolKit/Neurosurgical-Planning"

From NAMIC Wiki
Jump to: navigation, search
Line 24: Line 24:
 
==Tutorial Materials - New structure==
 
==Tutorial Materials - New structure==
 
== UNDER CONSTRUCTION==
 
== UNDER CONSTRUCTION==
−
*[[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
+
 
−
*[[Media:language_FMRI.tar.gz | language fMRI dataset]]
+
==To Complete the Entire Tutorial==
−
*[[Media:DTI.tar.gz | Diffusion tensor dataset]]
+
* Tutorial slides for the entire neurosurgical planning tutorial: [[Media:IGTPlanning_all.pdf | pdf (recommended)]] or [[Media::IGTPlanning_all.ppt | ppt]]
 +
*[[Media:neurosurgicalPlanning_all.tar.gz | Entire tutorial dataset]]
 +
 
 +
==To complete a Section of the Tutorial==
  
 
'''Part 1 - Affine Registration'''
 
'''Part 1 - Affine Registration'''
 +
* [[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
 +
* [[Media:language_FMRI.tar.gz | language fMRI dataset]]
 +
* [[Media:IGTPlanning_part1_affineRegistration.pdf | Tutorial slides for part 1 of the neurosurgical planning tutorial]]
 +
 +
'''Part 2 - Segmentation and Model Making'''
 +
* [[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
 +
* [[Media:language_FMRI.tar.gz | language fMRI dataset]]
 +
* [[Media:neurosurgicalPlanning_part1.mrml | MRML scene of Part 1 results]]
 +
* [[Media:IGTPlanning_part2_segmentationAndModelMaking.pdf | Tutorial slides for part 2 of the neurosurgical planning tutorial]]
 +
 +
'''Part 3 - Incorporating an Atlas'''
 +
* [[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
 +
* [[Media:language_FMRI.tar.gz | language fMRI dataset]]
 +
* [http://www.spl.harvard.edu/extensions/PubDB/publications/download_bitstream.php?bitstreamid=4171 SPL-PNL brain atlas]
 +
* [[Media:neurosurgicalPlanning_part2.mrml | MRML scene of Part 2 results]]
 +
* [[Media:neurosurgicalPlanning_part3_additional.tar.gz | Additional files for part 3]]
 +
* [[Media:IGTPlanning_part3_usingAnAtlas.pdf | Tutorial slides for part 3 of the neurosurgical planning tutorial]]
 +
 +
'''Part 4 - Diffusion Tensor'''
 +
* [[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
 +
* [[Media:language_FMRI.tar.gz | language fMRI dataset]]
 +
* [http://www.spl.harvard.edu/extensions/PubDB/publications/download_bitstream.php?bitstreamid=4171 SPL-PNL brain atlas]
 +
* [[Media:DTI.tar.gz | DTI dataset]]
 +
* [[Media:neurosurgicalPlanning_part3.mrml | MRML scene of Part 3 results]]
 +
* [[Media:neurosurgicalPlanning_part4_additional.tar.gz | Additional files for part 4]]
 +
* [[Media:IGTPlanning_part4_diffusionWeightedImaging.pdf | Tutorial slides for part 4 of the neurosurgical planning tutorial]]
  
 +
'''Part 5 - Annotating the Preoperative Plan'''
 +
* [[Media:3D_SPGR.tar.gz | anatomical MRI dataset]]
 +
* [[Media:language_FMRI.tar.gz | language fMRI dataset]]
 +
* [http://www.spl.harvard.edu/extensions/PubDB/publications/download_bitstream.php?bitstreamid=4171 SPL-PNL brain atlas]
 +
* [[Media:DTI.tar.gz | DTI dataset]]
 +
* [[Media:neurosurgicalPlanning_part4.mrml | MRML scene of Part 4 results]]
 +
* [[Media:neurosurgicalPlanning_part5_additional.tar.gz | Additional files for part 5]]
 +
* [[Media:IGTPlanning_part5_annotation.pdf | Tutorial slides for part 5 of the neurosurgical planning tutorial]]
  
 
==Bonus Materials==
 
==Bonus Materials==

Revision as of 21:40, 10 October 2008

Home < IGT:ToolKit < Neurosurgical-Planning
NeurosurgicalPlanningOverview.png

Back to IGT:ToolKit

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: pdf (recommended) or ppt
  • 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

Tutorial Materials - New structure

UNDER CONSTRUCTION

To Complete the Entire Tutorial

To complete a Section of the Tutorial

Part 1 - Affine Registration

Part 2 - Segmentation and Model Making

Part 3 - Incorporating an Atlas

Part 4 - Diffusion Tensor

Part 5 - Annotating the Preoperative Plan

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.

  1. general view
  2. location of the precentral gyrus based the surface of the white matter
  3. peritumoral seeding of tractography: The general appearance is that of a "ball of spaghettis" with two tentacles,
  4. 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

MRML scene and data in a zip file

Software Installation Instructions

Go to the Slicer3 Install site.

People

Retrieved from "https://www.na-mic.org/w/index.php?title=IGT:ToolKit/Neurosurgical-Planning&oldid=30992"