Difference between revisions of "2010 Summer Project Week/The Vascular Modeling Toolkit in 3D Slicer"

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The plan for the project week is to create a new VMTK based module for network extraction of vascular trees. Network extraction is comparable to vessel centerlines
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The plan for the project week is to create a new VMTK based module for network extraction of vascular trees. Network extraction is comparable to vessel centerlines with a little bit less accuracy but faster. The algorithm works on a triangulated surface of segmented vessels and would fit in the pipeline of existing VMTK modules.
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Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below. The main challenge to this approach is <foo>.
 
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Our plan for the project week is to first try out <bar>,...
 
  
 
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Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the [[NA-MIC/Projects/Diffusion_Image_Analysis/DTI_Software_and_Algorithm_Infrastructure|DTI Software Infrastructure]] project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.
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The following pages show the documentation of already existing VMTK in 3D Slicer modules:
  
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* VmtkSlicerModule - the
  
 
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Revision as of 02:29, 17 June 2010

Home < 2010 Summer Project Week < The Vascular Modeling Toolkit in 3D Slicer

  • VMTK in 3D Slicer

  • An over-layed label map showing the segmentation in 2D.

Key Investigators

  • UPENN: Daniel Haehn, Kilian Pohl
  • Mario Negri Institute, Italy: Luca Antiga
  • SPL: Steve Pieper, Ron Kikinis

Objective

The Vascular Modeling Toolkit (VMTK) is a collection of libraries and tools for 3D reconstruction, geometric analysis, mesh generation and surface data analysis for image-based modeling of blood vessels.

Parts of VMTK were already integrated to 3D Slicer and f.e. can be combined to a pipeline for centerline extraction of vascular trees. This pipeline consisting of Vessel Enhancement filtering, level set segmentation and the actual centerline extraction was tested on different cases.


The official project page: http://www.vmtk.org/Main/VmtkIn3DSlicer

Approach, Plan

The plan for the project week is to create a new VMTK based module for network extraction of vascular trees. Network extraction is comparable to vessel centerlines with a little bit less accuracy but faster. The algorithm works on a triangulated surface of segmented vessels and would fit in the pipeline of existing VMTK modules.

Progress

The following pages show the documentation of already existing VMTK in 3D Slicer modules:

  • VmtkSlicerModule - the

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

  1. Slicer Module
    1. Extension -- loadable YES

References

  • Antiga L, Piccinelli M, Botti L, Ene-Iordache B, Remuzzi A and Steinman DA. An image-based modeling framework for patient-specific computational hemodynamics. Medical and Biological Engineering and Computing, 46: 1097-1112, Nov 2008.
  • D. Hähn. Integration of the vascular modeling toolkit in 3d slicer. SPL, 04 2009. Available online at http://www.spl.harvard.edu/publications/item/view/1728.
  • D. Hähn. Centerline Extraction of Coronary Arteries in 3D Slicer using VMTK based Tools. Master's Thesis. Department of Medical Informatics, University of Heidelberg, Germany. Feb 2010.
  • Piccinelli M, Veneziani A, Steinman DA, Remuzzi A, Antiga L (2009) A framework for geometric analysis of vascular structures: applications to cerebral aneurysms. IEEE Trans Med Imaging. In press.
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