2012 Summer Project Week:RidgeExtractionAtrialWallSegmentation - Revision history

Anry: /* Key Investigators */

2012-06-22T13:01:02Z

Key Investigators

Anry at 18:29, 15 June 2012

2012-06-15T18:29:35Z

Anry at 00:58, 8 June 2012

2012-06-08T00:58:55Z

Anry at 00:49, 8 June 2012

2012-06-08T00:49:32Z

Anry at 21:47, 6 June 2012

2012-06-06T21:47:04Z

Anry: Created page with 'NOTOC

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 <h3>Progress</h3>
 We have developed topological simplification methods for removing noisy local maxima. The resulting ridge detection algorithm shows average error less then 2 pixels compared to the manual segmentation.
 </div>
 </div>
 ==References==
 # Edelsbrunner, H., Harer, J., & Zomorodian, A. (2003). Hierarchical Morse--Smale Complexes for Piecewise Linear 2-Manifolds. Discrete and Computational Geometry, 30(1), 87-107. doi:10.1007/s00454-003-2926-5
 # Szymczak, A., Stillman, A., Tannenbaum, A., & Mischaikow, K. (2006). Coronary vessel trees from 3D imagery: a topological approach. Medical image analysis, 10(4), 548-59. doi:10.1016/j.media.2006.05.002

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 Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
 Image:MRI1.jpg|Example of manual segmentation of the left atrial wall.
 </gallery>
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 </div>
 ==References==
 # Edelsbrunner, H., Harer, J., & Zomorodian, A. (2003). Hierarchical Morse--Smale Complexes for Piecewise Linear 2-Manifolds. Discrete and Computational Geometry, 30(1), 87-107. doi:10.1007/s00454-003-2926-5
 # Szymczak, A., Stillman, A., Tannenbaum, A., & Mischaikow, K. (2006). Coronary vessel trees from 3D imagery: a topological approach. Medical image analysis, 10(4), 548-59. doi:10.1016/j.media.2006.05.002

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 __NOTOC__
-<!-- <gallery>
+<gallery>
 Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
 Image:MRI1.jpg|Example of manual segmentation of the left atrial wall.
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 ==Background==
-Catheter ablation has been proposed for treatment of atrial fibrillation arrhythmia. MRI data is used to explore lesion ablation and scarification locations are extracted from MRI image data. In addition, MRI analysis may help to predict if the ablation procedure will help a patient.
+Catheter ablation has been proposed for treatment of atrial fibrillation arrhythmia. MRI data is used to explore lesion ablation and scarification locations are extracted from MRI image data. In addition, MRI analysis may help to predict if the ablation procedure will help a patient or not.
 Many of these image analysis tasks are largely based on segmentation of left atrial wall, which is done manually or semi-automatically.
 Automatic segmentation uses moving contours or surfaces (interfaces) to segment image data by minimizing a predefined energy function.
-These moving interfaces are highly affected by image data, which can be thought as a force field pushing the interface to the features of choice. Thus, the choice of image features attracting the interface is critical.
+These moving interfaces are highly affected by image data, which can be thought as a force field pushing the interface to features of choice. Thus, the choice of interface attracting image features is critical.
 ==Key Investigators==
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 <h3>Objective</h3>
-We are exploring different image features which are appropriate for automatic segmentation. Our objective is to compare different topological extrema ranking algorithms (including maximum persistence and perceptual ridge importance) to provide the most appropriate features, based on expert's manual segmentation.
+We are exploring different image features which are appropriate for an automatic segmentation. Our objective is to compare different topological extrema ranking algorithms (including maximum persistence [1,2] and perceptual ridge importance) to provide the most appropriate features, based on expert's manual segmentation.
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 * Local ridge extraction
 * Topological persistence algorithm implementation
-* Comparison of different topological simplification approaches using the comparison framework
+* Comparison of different topological simplification approaches
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 ==References==

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 <!-- <gallery>
 Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
-Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.
+Image:MRI1.jpg|Example of manual segmentation of the left atrial wall.
 </gallery>
 ==Key Investigators==
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 <h3>Objective</h3>
-We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.
+We are exploring different image features which are appropriate for automatic segmentation. Our objective is to compare different topological extrema ranking algorithms (including maximum persistence and perceptual ridge importance) to provide the most appropriate features, based on expert's manual segmentation.
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 <h3>Approach, Plan</h3>
-Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below.  The main challenge to this approach is <foo>.
+* Implementing the comparison framework
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 <h3>Progress</h3>
-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.
+We have developed topological simplification methods for removing noisy local maxima. The resulting ridge detection algorithm shows average error less then 2 pixels compared to the manual segmentation.
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 ==Delivery Mechanism==
-This work will be delivered to the NA-MIC Kit as a
+This work will be delivered to the NA-MIC Kit as an Extension -- commandline
 ==References==

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 Image:genuFA.jpg|Regression of FA data; solid line represents the mean and dotted lines the standard deviation.
 </gallery>
 ==Key Investigators==
-* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
+* BU: Arie Nakhmani
-* Utah: Tom Fletcher, Ross Whitaker
+* BU and CCC UAB: Allen Tannenbaum
 <div style="margin: 20px;">
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 ==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)
+This work will be delivered to the NA-MIC Kit as a
 #ITK Module
 #Slicer Module
 ##Built-in
-##Extension -- commandline
+##Extension -- commandline - YES
 ##Extension -- loadable
 #Other (Please specify)

2012 Summer Project Week:RidgeExtractionAtrialWallSegmentation - Revision history

Anry: /* Key Investigators */

Anry at 18:29, 15 June 2012

Anry at 00:58, 8 June 2012

Anry at 00:49, 8 June 2012

Anry at 21:47, 6 June 2012

Anry: Created page with '__NOTOC__

Anry: Created page with 'NOTOC