2008 Winter Project Week:Geodesic Tractography Segmentation - Revision history

Melonakos at 16:16, 11 January 2008

2008-01-11T16:16:02Z

Vandana mohan: /* Jan 2008 Project Week */

2008-01-11T15:20:14Z

Jan 2008 Project Week

Melonakos: /* References */

2007-12-13T05:12:38Z

References

Melonakos at 07:09, 12 December 2007

2007-12-12T07:09:07Z

Melonakos at 15:17, 11 December 2007

2007-12-11T15:17:09Z

Melonakos at 15:16, 11 December 2007

2007-12-11T15:16:43Z

Melonakos: New page: {| |Return to [[2008_Winter_Project_Week ]] |valign="top"|The Cingulum Bundle Anchor Tract |} __...

2007-12-11T15:16:24Z

New page: {| |thumb|320px|Return to [[2008_Winter_Project_Week ]] |valign="top"|thumb|320px|The Cingulum Bundle Anchor Tract |} __...

New page

{|
|[[Image:NAMIC-SLC.jpg|thumb|320px|Return to [[2008_Winter_Project_Week]] ]]
|valign="top"|[[Image:Case24-coronal-tensors-edit.png |thumb|320px|The Cingulum Bundle Anchor Tract]]
|}

__NOTOC__
===Key Investigators===
* Georgia Tech: John Melonakos, Vandana Mohan
* Kitware: Luis Ibanez
* BWH: Mark Niethammer, Marek Kubicki

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<h1>Objective</h1>
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 is to enable the command-line execution of a Matlab executable.

See our [[Projects:GeodesicTractographySegmentation| Project Page]] for more details.

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<h1>Approach, Plan </h1>
Our approach is described by the references below. Our challenge is to link the Matlab executable with the Slicer3 command line module.
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<h1>Progress</h1>

====Jan 2008 Project Week====
Coming soon!

====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.

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===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.

← Older revision		Revision as of 05:12, 13 December 2007
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	===References===		===References===
−	[http://www.na-mic.org/Special:Publications?text=Projects%~~3ADWMRIGeodesicActiveContours~~&submit=Search&words=all&title=checked&keywords=checked&authors=checked&abstract=checked&sponsors=checked&searchbytag=checked NA-MIC Publications Database]	+	[http://www.na-mic.org/Special:Publications?text=Projects%3AGeodesicTractographySegmentation&submit=Search&words=all&title=checked&keywords=checked&authors=checked&abstract=checked&sponsors=checked&searchbytag=checked NA-MIC Publications Database]

← Older revision		Revision as of 07:09, 12 December 2007
Line 50:		Line 50:

	===References===		===References===
−	* J. ~~Melonakos, M. Niethammer, V. Mohan, M. Kubicki, J. Miller, A. Tannenbaum. Locally-Constrained Region~~-~~Based Methods for DW-MRI Segmentation. MMBIA 2007.~~	+	[http://www.na-mic.org/Special:Publications?text=Projects%3ADWMRIGeodesicActiveContours&submit=Search&words=all&title=checked&keywords=checked&authors=checked&abstract=checked&sponsors=checked&searchbytag=checked NA-MIC Publications Database]
−	* 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 2008.
−	* 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.

@@ Line 2: / Line 2: @@
 |[[Image:NAMIC-SLC.jpg|thumb|320px|Return to [[2008_Winter_Project_Week]] ]]
 |valign="top"|[[Image:Case24-coronal-tensors-edit.png |thumb|320px|The Cingulum Bundle Anchor Tract]]
 |}

@@ Line 34: / Line 34: @@
 ====Jan 2008 Project Week====
-Coming soon!
 ====June 2007 Project Week====

@@ Line 50: / Line 50: @@
 ===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.
+* J. Melonakos, M. Niethammer, V. Mohan, M. Kubicki, J. Miller, A. Tannenbaum. Locally-Constrained Region-Based Methods for DW-MRI Segmentation. 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.
+* J. Melonakos, E. Pichon, S. Angenet, and A. Tannenbaum. Finsler Active Contours. IEEE Transactions on Pattern Analysis and Machine Intelligence, to appear in 2008.
 * 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.

@@ Line 8: / Line 8: @@
 * Georgia Tech: John Melonakos, Vandana Mohan
 * Kitware: Luis Ibanez
-* BWH: Mark Niethammer, Marek Kubicki
+* BWH: Marc Niethammer, Marek Kubicki
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