Difference between revisions of "Documentation/Nightly/Extensions/CardiacMRIToolkit"
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This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].<br> | This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the [http://www.na-mic.org/ NA-MIC website].<br> | ||
| − | Authors: Alan Morris, Salma Bengali, CARMA Center, University of Utah<br> | + | Authors: Alan Morris, Umme Salma Bengali, CARMA Center, University of Utah<br> |
Contributors: Greg Gardner, Josh Cates, Rob MacLeod, Eugene Kholmovski, CARMA Center, University of Utah<br> | Contributors: Greg Gardner, Josh Cates, Rob MacLeod, Eugene Kholmovski, CARMA Center, University of Utah<br> | ||
Contacts: Alan Morris: <email>alan.morris@carma.utah.edu</email>, Salma Bengali: <email>salma.bengali@carma.utah.edu</email><br> | Contacts: Alan Morris: <email>alan.morris@carma.utah.edu</email>, Salma Bengali: <email>salma.bengali@carma.utah.edu</email><br> | ||
| − | Website: [http://carmacenter.org http://carmacenter.org] <br> | + | Website: [http://capulet.med.utah.edu/namic/cmrslicer/ Slicer CMR Toolkit] <br> [http://carmacenter.org http://carmacenter.org] <br> |
[http://www.na-mic.org/Wiki/index.php/DBP3:Utah http://www.na-mic.org/Wiki/index.php/DBP3:Utah] | [http://www.na-mic.org/Wiki/index.php/DBP3:Utah http://www.na-mic.org/Wiki/index.php/DBP3:Utah] | ||
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{{documentation/{{documentation/version}}/extension-section|Extension Description}} | {{documentation/{{documentation/version}}/extension-section|Extension Description}} | ||
| − | The | + | {| |
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| + | [[Image:CMRTK-logo.png]] | ||
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| + | The Cardiac MRI Toolkit extension consists of several modules that can be used in the analysis of cardiac LGE-MRI images for the purpose of studying cardiac arrhythmia. | ||
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| + | |} | ||
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{{documentation/{{documentation/version}}/extension-section|Modules}} | {{documentation/{{documentation/version}}/extension-section|Modules}} | ||
| + | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleCMRToolkitWizard|CMR Toolkit Wizard]] | ||
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleInhomogeneity|Automatic Cardiac MRI Inhomogeneity Correction Filter]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleInhomogeneity|Automatic Cardiac MRI Inhomogeneity Correction Filter]] | ||
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleAutoScar|Automatic Left Atrial (Post-ablation) Scar Detection]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleAutoScar|Automatic Left Atrial (Post-ablation) Scar Detection]] | ||
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*[[Documentation/{{documentation/version}}/Modules/SlicerModuleAxialDilate|2D Axial Dilate Filter]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleAxialDilate|2D Axial Dilate Filter]] | ||
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleBooleanRemove|Boolean REMOVE Filter]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleBooleanRemove|Boolean REMOVE Filter]] | ||
| + | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleThresholdModel|Scar Visualization]] | ||
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleIsolatedConnected|Isolated Connected Image Filter]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleIsolatedConnected|Isolated Connected Image Filter]] | ||
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleConnectedThreshold|Connected Threshold Image Filter]] | *[[Documentation/{{documentation/version}}/Modules/SlicerModuleConnectedThreshold|Connected Threshold Image Filter]] | ||
| − | *[ | + | *[[Documentation/{{documentation/version}}/Modules/AutomatedLASegmentation|Automated LA Segmentation]] |
| − | + | *[[Documentation/{{documentation/version}}/Modules/LASegmentationWorkflow|LA Segmentation Workflow]] | |
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{{documentation/{{documentation/version}}/extension-section|Use Cases}} | {{documentation/{{documentation/version}}/extension-section|Use Cases}} | ||
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* Cardiac LGE-MRI image registration | * Cardiac LGE-MRI image registration | ||
* Various operations on segmentation masks | * Various operations on segmentation masks | ||
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| + | {{documentation/{{documentation/version}}/extension-section|Lookup Table}} | ||
| + | *[[Documentation/{{documentation/version}}/Modules/CMRToolkitColorLUT|Lookup Table]] | ||
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{{documentation/{{documentation/version}}/extension-section|Tutorials}} | {{documentation/{{documentation/version}}/extension-section|Tutorials}} | ||
| − | + | *[[Media: Cardiac_MRI_Toolkit_Tutorial_Summer2013.pptx|Cardiac MRI Toolkit Tutorial]] | |
| + | *[http://wiki.na-mic.org/Wiki/index.php/File:CMRToolkit_SummerTutorialContest2013_Videos_Part1.zip Tutorial Videos Part 1] | ||
| + | *[http://wiki.na-mic.org/Wiki/index.php/File:CMRToolkit_SummerTutorialContest2013_Videos_Part2.zip Tutorial Videos Part 2] | ||
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Latest revision as of 00:09, 27 October 2015
Home < Documentation < Nightly < Extensions < CardiacMRIToolkit
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For the latest Slicer documentation, visit the read-the-docs. |
Introduction and Acknowledgements
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This work is part of the National Alliance for Medical Image Computing (NA-MIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on NA-MIC can be obtained from the NA-MIC website. | |||
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Extension Description
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The Cardiac MRI Toolkit extension consists of several modules that can be used in the analysis of cardiac LGE-MRI images for the purpose of studying cardiac arrhythmia. |
Modules
- CMR Toolkit Wizard
- Automatic Cardiac MRI Inhomogeneity Correction Filter
- Automatic Left Atrial (Post-ablation) Scar Detection
- Cardiac MRI Registration
- Cardiac MRI Registration Using BRAINSFit
- PV Antrum Cut Filter
- 2D Axial Dilate Filter
- Boolean REMOVE Filter
- Scar Visualization
- Isolated Connected Image Filter
- Connected Threshold Image Filter
- Automated LA Segmentation
- LA Segmentation Workflow
Use Cases
- Sample data:
- Sixty anonymized datasets containing LGE-MRI image data and segmentations of the left atrium from patients with atrial fibrillation: Pre and Post Radiofrequency Ablation LGE-MRI Collection
- Sixty segmentation datasets of the left atrium from patients with atrial fibrillation who have undergone radiofrequency catheter ablation for treatment: CARMA Longitudinal Left Atrial Shape Data
- Automatic scar detection from cardiac LGE-MRI scans
- Segmentation of the heart
- Cardiac LGE-MRI image registration
- Various operations on segmentation masks
Lookup Table
Tutorials
Information for Developers
The source code for this extension can be found at the CARMA GitHub repository.
