Difference between revisions of "NA-MIC VMTK Collaboration"
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| + | Back to [[NA-MIC_External_Collaborations|NA-MIC External Collaborations]] | ||
| + | __NOTOC__ | ||
Collaboration with [http://villacamozzi.marionegri.it/~luca/ Luca Antiga] of the [http://www.marionegri.it Mario Negri Institute]. | Collaboration with [http://villacamozzi.marionegri.it/~luca/ Luca Antiga] of the [http://www.marionegri.it Mario Negri Institute]. | ||
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[[Image:VmtkSlicerModule.jpg]] | [[Image:VmtkSlicerModule.jpg]] | ||
[[Image:VoronoiVortices lowres.png]] | [[Image:VoronoiVortices lowres.png]] | ||
| − | ===Goals of the Project | + | ==Key Personnel== |
| + | *Mario Negri Institute: Luca Antiga, PI | ||
| + | *NA-MIC: Ron Kikinis, Steve Pieper | ||
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| + | ==Goals of the Project== | ||
To create a Slicer-based platform for segmentation of vascular segments from angiographic images (CTA, MRA, ...), analysis of vascular geometry, mesh generation and hemodynamic simulation (CFD) and visualization. | To create a Slicer-based platform for segmentation of vascular segments from angiographic images (CTA, MRA, ...), analysis of vascular geometry, mesh generation and hemodynamic simulation (CFD) and visualization. | ||
Since many of these functionalities are already provided by the Vascular Modeling Toolkit ([http://www.vmtk.org www.vmtk.org]) as command-line tools, the plan is to integrate vmtk scripts within Slicer as command-line modules for the non-interactive tasks, and to create ad-hoc GUI modules for the more interactive tasks (i.e. segmentation). | Since many of these functionalities are already provided by the Vascular Modeling Toolkit ([http://www.vmtk.org www.vmtk.org]) as command-line tools, the plan is to integrate vmtk scripts within Slicer as command-line modules for the non-interactive tasks, and to create ad-hoc GUI modules for the more interactive tasks (i.e. segmentation). | ||
| − | + | ==Current Progress== | |
* vmtk script for automated conversion of vmtk command line pipes to Slicer command-line modules (DONE) | * vmtk script for automated conversion of vmtk command line pipes to Slicer command-line modules (DONE) | ||
| − | * Implementation of vmtk-based interactive modules, available at [http://www.vmtk.org/Main/VmtkIn3DSlicer the VMTK in 3D Slicer project page]. Documentation | + | * Implementation of vmtk-based interactive modules, available at [http://www.vmtk.org/Main/VmtkIn3DSlicer the VMTK in 3D Slicer project page]. Documentation is available at the Slicer wiki [https://www.slicer.org/wiki/Modules:VMTKLevelSetSegmentation here]. |
| + | * NEW TUTORIAL AVAILABLE: [[AHM_2010_Tutorial_Contest_-_CoronaryArteriesCenterlinesVMTK|Centerline Extraction of Coronary Arteries in 3D Slicer using VMTK based Tools]] | ||
| + | * New extensions available: VMTKNetworkExtraction (Documentation to come..) | ||
| − | + | ==References== | |
[http://www.vmtk.org www.vmtk.org] | [http://www.vmtk.org www.vmtk.org] | ||
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| + | [http://www.vmtk.org/Main/VmtkIn3DSlicer VMTK in 3D Slicer project page] | ||
[[Collaboration/VMTK | 2007 Summer Project Week]] | [[Collaboration/VMTK | 2007 Summer Project Week]] | ||
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[[Summer2009:The_Vascular_Modeling_Toolkit_in_3D_Slicer | 2009 Summer Project Week]] | [[Summer2009:The_Vascular_Modeling_Toolkit_in_3D_Slicer | 2009 Summer Project Week]] | ||
| − | + | [[2010_Winter_Project_Week_The_Vascular_Modeling_Toolkit_in_3D_Slicer|2010 Winter Project Week]] | |
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| + | [[2010_Summer_Project_Week/The_Vascular_Modeling_Toolkit_in_3D_Slicer|2010 Summer Project Week]] | ||
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| + | ==Citations == | ||
| − | * 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. | + | * 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. 2009 Aug;28(8):1141-55. PMID: 19447701. |
| − | * Antiga L, Piccinelli M, Botti L, Ene-Iordache B, Remuzzi A and Steinman DA. An image-based modeling framework for patient-specific computational hemodynamics. | + | * Antiga L, Piccinelli M, Botti L, Ene-Iordache B, Remuzzi A and Steinman DA. An image-based modeling framework for patient-specific computational hemodynamics. Med Biol Eng Comput. 2008 Nov;46(11):1097-112. PMID: 19002516. |
| − | * Lee SW, Antiga L, Spence JD and Steinman DA. Geometry of the carotid bifurcation predicts its exposure to disturbed flow. Stroke | + | * Lee SW, Antiga L, Spence JD and Steinman DA. Geometry of the carotid bifurcation predicts its exposure to disturbed flow. Stroke. 2008 Aug;39(8):2341-7. PMID: 18556585. Featured on the front cover. |
| − | * Thomas JB, Antiga L, Che S, Milner JS, Hangan Steinman DA, Spence JD, Rutt BK and Steinman DA. Variation in the carotid bifurcation geometry of young vs. older adults: Implications for "geometric risk" of atherosclerosis. Stroke | + | * Thomas JB, Antiga L, Che S, Milner JS, Hangan Steinman DA, Spence JD, Rutt BK and Steinman DA. Variation in the carotid bifurcation geometry of young vs. older adults: Implications for "geometric risk" of atherosclerosis. Stroke. 2005 Nov;36(11):2450-6. PMID: 16224089. |
| − | * Antiga L, Steinman DA. Robust and objective decomposition and mapping of bifurcating vessels. IEEE | + | * Antiga L, Steinman DA. Robust and objective decomposition and mapping of bifurcating vessels. IEEE Trans Med Imaging. 2004 Jun;23(6):704-13. PMID: 15191145. |
| − | * Antiga L, Ene-Iordache B and Remuzzi A. Computational geometry for patient-specific reconstruction and meshing of blood vessels from MR and CT angiography. | + | * Antiga L, Ene-Iordache B and Remuzzi A. Computational geometry for patient-specific reconstruction and meshing of blood vessels from MR and CT angiography. EEE Trans Med Imaging. 2003 May;22(5):674-84. PMID: 12846436. |
Latest revision as of 18:07, 10 July 2017
Home < NA-MIC VMTK CollaborationBack to NA-MIC External Collaborations
Collaboration with Luca Antiga of the Mario Negri Institute.
Key Personnel
- Mario Negri Institute: Luca Antiga, PI
- NA-MIC: Ron Kikinis, Steve Pieper
Goals of the Project
To create a Slicer-based platform for segmentation of vascular segments from angiographic images (CTA, MRA, ...), analysis of vascular geometry, mesh generation and hemodynamic simulation (CFD) and visualization.
Since many of these functionalities are already provided by the Vascular Modeling Toolkit (www.vmtk.org) as command-line tools, the plan is to integrate vmtk scripts within Slicer as command-line modules for the non-interactive tasks, and to create ad-hoc GUI modules for the more interactive tasks (i.e. segmentation).
Current Progress
- vmtk script for automated conversion of vmtk command line pipes to Slicer command-line modules (DONE)
- Implementation of vmtk-based interactive modules, available at the VMTK in 3D Slicer project page. Documentation is available at the Slicer wiki here.
- NEW TUTORIAL AVAILABLE: Centerline Extraction of Coronary Arteries in 3D Slicer using VMTK based Tools
- New extensions available: VMTKNetworkExtraction (Documentation to come..)
References
VMTK in 3D Slicer project page
Citations
- 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. 2009 Aug;28(8):1141-55. PMID: 19447701.
- Antiga L, Piccinelli M, Botti L, Ene-Iordache B, Remuzzi A and Steinman DA. An image-based modeling framework for patient-specific computational hemodynamics. Med Biol Eng Comput. 2008 Nov;46(11):1097-112. PMID: 19002516.
- Lee SW, Antiga L, Spence JD and Steinman DA. Geometry of the carotid bifurcation predicts its exposure to disturbed flow. Stroke. 2008 Aug;39(8):2341-7. PMID: 18556585. Featured on the front cover.
- Thomas JB, Antiga L, Che S, Milner JS, Hangan Steinman DA, Spence JD, Rutt BK and Steinman DA. Variation in the carotid bifurcation geometry of young vs. older adults: Implications for "geometric risk" of atherosclerosis. Stroke. 2005 Nov;36(11):2450-6. PMID: 16224089.
- Antiga L, Steinman DA. Robust and objective decomposition and mapping of bifurcating vessels. IEEE Trans Med Imaging. 2004 Jun;23(6):704-13. PMID: 15191145.
- Antiga L, Ene-Iordache B and Remuzzi A. Computational geometry for patient-specific reconstruction and meshing of blood vessels from MR and CT angiography. EEE Trans Med Imaging. 2003 May;22(5):674-84. PMID: 12846436.
