Difference between revisions of "Projects/Diffusion/2007 Project Week Geodesic Tractography"
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|valign="top"|[[Image:Case24-coronal-tensors-edit.png |thumb|250px|Detailed View of the Cingulum Bundle Anchor Tract]] | |valign="top"|[[Image:Case24-coronal-tensors-edit.png |thumb|250px|Detailed View of the Cingulum Bundle Anchor Tract]] | ||
|valign="top"|[[Image:Case25-sagstream-tensors-edit.png|thumb|250px|Streamline Comparison]] | |valign="top"|[[Image:Case25-sagstream-tensors-edit.png|thumb|250px|Streamline Comparison]] | ||
| + | |valign="top"|[[Image:ZoomedResultWithModel.png|thumb|250px|3D Volumetric Segmentation]] | ||
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* Kitware: Luis Ibanez | * Kitware: Luis Ibanez | ||
* BWH: Mark Niethammer, Marek Kubicki | * BWH: Mark Niethammer, Marek Kubicki | ||
| − | |||
<div style="margin: 20px;"> | <div style="margin: 20px;"> | ||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
| + | |||
<h1>Objective</h1> | <h1>Objective</h1> | ||
| − | We have developed techniques for finding the optimal geodesic | + | We have developed techniques for finding the optimal geodesic path (or anchor tract) between two regions of interest in DWMRI data. |
| − | The | + | The objectives of this project are to port the Fast Sweeping and optimal geodesic path tractography code to ITK as well as the code to provide for volumetric segmentation of DW-MRI data. |
| + | |||
| + | See our [[Algorithm:GATech:Finsler_Active_Contour_DWI| Project Page]] for more details. | ||
</div> | </div> | ||
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<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
| − | <h1> | + | <h1>Approach, Plan </h1> |
| − | Our approach is described by the references below. Our challenge is to build the ITK infrastructure (such as new ITK iterators) to support this algorithm. | + | Our approach is described by the references below. Our challenge is to build the ITK infrastructure (such as new ITK iterators) to support this algorithm. Our main purpose at the Project Week is to collaborate on new algorithms and clinical data to provide the best solutions for our DBP partners. |
</div> | </div> | ||
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<h1>Progress</h1> | <h1>Progress</h1> | ||
| − | |||
====June 2007 Project Week==== | ====June 2007 Project Week==== | ||
| − | + | During this Project Week, we did a lot of algorithmic design work, focusing on leveraging optimal or geodesic path information to provide for volumetric segmentations of fiber bundles. Working with Marek Kubicki and the Harvard DBP, we were able to begin the process of applying our algorithm to the full cingulum bundle with new labelmaps and to a new fiber bundle - Arcuate. We have recently achieved significant results in volumetric segmentations using a locally-constrained region-based technique (see the images above). | |
====Jan 2007 Project Half Week==== | ====Jan 2007 Project Half Week==== | ||
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| − | === | + | ===References=== |
| − | * V. Mohan, J. Melonakos, M. Niethammer, M. Kubicki, and A. Tannenbaum. Finsler Level Set Segmentation for Imagery in Oriented Domains. BMVC 2007 | + | * J. Melonakos, M. Niethammer, V. Mohan, M. Kubicki, J. Miller, A. Tannenbaum. Locally-Constrained Region-Based Methods for DW-MRI Segmentation. Submitted to MMBIA 2007. |
| − | * J. Melonakos, V. Mohan, M. Niethammer, K. Smith, M. Kubicki, and A. Tannenbaum. Finsler Tractography for White Matter Connectivity Analysis of the Cingulum Bundle. MICCAI 2007 | + | * V. Mohan, J. Melonakos, M. Niethammer, M. Kubicki, and A. Tannenbaum. Finsler Level Set Segmentation for Imagery in Oriented Domains. BMVC 2007. |
| + | * J. Melonakos, V. Mohan, M. Niethammer, K. Smith, M. Kubicki, and A. Tannenbaum. Finsler Tractography for White Matter Connectivity Analysis of the Cingulum Bundle. MICCAI 2007. | ||
* J. Melonakos, E. Pichon, S. Angenet, and A. Tannenbaum. Finsler Active Contours. IEEE Transactions on Pattern Analysis and Machine Intelligence, to appear in 2007. | * J. Melonakos, E. Pichon, S. Angenet, and A. Tannenbaum. Finsler Active Contours. IEEE Transactions on Pattern Analysis and Machine Intelligence, to appear in 2007. | ||
* E. Pichon and A. Tannenbaum. Curve segmentation using directional information, relation to pattern detection. In IEEE International Conference on Image Processing (ICIP), volume 2, pages 794-797, 2005. | * E. Pichon and A. Tannenbaum. Curve segmentation using directional information, relation to pattern detection. In IEEE International Conference on Image Processing (ICIP), volume 2, pages 794-797, 2005. | ||
* E. Pichon, C-F Westin, and A. Tannenbaum. A Hamilton-Jacobi-Bellman approach to high angular resolution diffusion tractography. In International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), pages 180-187, 2005. | * E. Pichon, C-F Westin, and A. Tannenbaum. A Hamilton-Jacobi-Bellman approach to high angular resolution diffusion tractography. In International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), pages 180-187, 2005. | ||
Latest revision as of 14:44, 30 July 2007
Home < Projects < Diffusion < 2007 Project Week Geodesic Tractography Return to Project Week Main Page |
Key Investigators
- Georgia Tech: John Melonakos, Vandana Mohan
- Kitware: Luis Ibanez
- BWH: Mark Niethammer, Marek Kubicki
Objective
We have developed techniques for finding the optimal geodesic path (or anchor tract) between two regions of interest in DWMRI data.
The objectives of this project are to port the Fast Sweeping and optimal geodesic path tractography code to ITK as well as the code to provide for volumetric segmentation of DW-MRI data.
See our Project Page for more details.
Approach, Plan
Our approach is described by the references below. Our challenge is to build the ITK infrastructure (such as new ITK iterators) to support this algorithm. Our main purpose at the Project Week is to collaborate on new algorithms and clinical data to provide the best solutions for our DBP partners.
Progress
June 2007 Project Week
During this Project Week, we did a lot of algorithmic design work, focusing on leveraging optimal or geodesic path information to provide for volumetric segmentations of fiber bundles. Working with Marek Kubicki and the Harvard DBP, we were able to begin the process of applying our algorithm to the full cingulum bundle with new labelmaps and to a new fiber bundle - Arcuate. We have recently achieved significant results in volumetric segmentations using a locally-constrained region-based technique (see the images above).
Jan 2007 Project Half Week
We finished the itkDirectionalIterator which will be needed in the Fast Sweeping implementation. Furthermore, we made progress in porting our Matlab code to ITK.
References
- J. Melonakos, M. Niethammer, V. Mohan, M. Kubicki, J. Miller, A. Tannenbaum. Locally-Constrained Region-Based Methods for DW-MRI Segmentation. Submitted to MMBIA 2007.
- V. Mohan, J. Melonakos, M. Niethammer, M. Kubicki, and A. Tannenbaum. Finsler Level Set Segmentation for Imagery in Oriented Domains. BMVC 2007.
- J. Melonakos, V. Mohan, M. Niethammer, K. Smith, M. Kubicki, and A. Tannenbaum. Finsler Tractography for White Matter Connectivity Analysis of the Cingulum Bundle. MICCAI 2007.
- J. Melonakos, E. Pichon, S. Angenet, and A. Tannenbaum. Finsler Active Contours. IEEE Transactions on Pattern Analysis and Machine Intelligence, to appear in 2007.
- E. Pichon and A. Tannenbaum. Curve segmentation using directional information, relation to pattern detection. In IEEE International Conference on Image Processing (ICIP), volume 2, pages 794-797, 2005.
- E. Pichon, C-F Westin, and A. Tannenbaum. A Hamilton-Jacobi-Bellman approach to high angular resolution diffusion tractography. In International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), pages 180-187, 2005.
