Difference between revisions of "Projects:KnowledgeBasedBayesianSegmentation"
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− | Back to [[NA- | + | Back to [[NA-MIC_Internal_Collaborations:StructuralImageAnalysis|NA-MIC Collaborations]], [[Algorithm:Stony Brook|Stony Brook University Algorithms]], [[Engineering:Kitware|Kitware Engineering]] |
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= Knowledge Based Bayesian Segmentation = | = Knowledge Based Bayesian Segmentation = | ||
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This ITK filter is a segmentation algorithm which utilizes Bayes's Rule along with an affine-invarient anisotropic smoothing filter. | This ITK filter is a segmentation algorithm which utilizes Bayes's Rule along with an affine-invarient anisotropic smoothing filter. | ||
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= Key Investigators = | = Key Investigators = | ||
− | * Georgia Tech: John Melonakos, Yi Gao, Allen Tannenbaum | + | * Georgia Tech Algorithms: John Melonakos, Yi Gao, Allen Tannenbaum |
− | * Kitware: Luis Ibanez, Karthik Krishnan | + | * Kitware Engineering: Luis Ibanez, Karthik Krishnan |
= Publications = | = Publications = | ||
''In Print'' | ''In Print'' | ||
− | * [http://www.na-mic.org/ | + | * [http://www.na-mic.org/publications/pages/display?search=KnowledgeBasedBayesianSegmentation&submit=Search&words=all&title=checked&keywords=checked&authors=checked&abstract=checked&searchbytag=checked&sponsors=checked| NA-MIC Publications Database on Knowledge-Based Bayesian Segmentation] |
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− | [[Category: | + | [[Category: Segmentation]] [[Category:MRI]] [[Category:Slicer]] |
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Latest revision as of 00:56, 16 November 2013
Home < Projects:KnowledgeBasedBayesianSegmentationBack to NA-MIC Collaborations, Stony Brook University Algorithms, Kitware Engineering
Knowledge Based Bayesian Segmentation
This ITK filter is a segmentation algorithm which utilizes Bayes's Rule along with an affine-invarient anisotropic smoothing filter.
Description
Use Case
I'd like to segment a volume or sub-volume into 'N' classes in a very general manner. I will provide the data and the number of classes that I expect and the algorithm will output a labelmap with 'N' classes.
Data
We have applied this algorithm to 20 normal brain MRI data-sets. We used publicly available data-sets from the Internet Brain Segmentation Repository (IBSR) offered by the Massachusetts General Hospital, Center for Morphometric Analysis. The IBSR data-sets are T1-weighted, 3D coronal brain scans after having been positionally normalized. Manual expert segmentations for these data-sets are publicly available and represent the ground truth used in this work.
Algorithm
This algorithm can be cast in either a static or dynamic framework. In the static framework, the following is the algorithm:
- The user sets the number of distinct classes for segmentation: 'N'
- Generate 'N' prior images (default, 'N' uniform prior images)
- Generate 'N' statistical distributions (default, 'N' normal distributions)
- Generate 'N' membership images by applying the statistical distributions to the raw data
- Generate 'N' posterior images by applying Bayes' rule to the prior and membership images
- Smooth the posterior images for 'm' iterations using an affine-invarient anisotropic smoothing filter and renormalize after each iteration (default, m = 5)
- Apply maximum a posteriori rule to apply labeling and finalize segmentation
In the dynamic framework, the following image depicts the adaptation of the static framework to the dynamic formulation:
The ITK filter design
Some Results
Project Status
- Fully incorporated into itkBayesianClassificationImageFilter and itkBayesianClassificationInitializationImageFilter in ITK CVS.
- Fully wrapped in VTK for use in Slicer.
- The working ITK code has been committed to the SandBox
Key Investigators
- Georgia Tech Algorithms: John Melonakos, Yi Gao, Allen Tannenbaum
- Kitware Engineering: Luis Ibanez, Karthik Krishnan
Publications
In Print