Difference between revisions of "Documentation/Nightly/Extensions/CardiacMRIToolkit"

From Slicer Wiki
Jump to: navigation, search
(Created page for CARMA extension)
 
 
(26 intermediate revisions by 2 users not shown)
Line 1: Line 1:
 +
<noinclude>{{documentation/versioncheck}}</noinclude>
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-header}}
 
{{documentation/{{documentation/version}}/module-header}}
Line 8: Line 9:
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
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://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]
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
 
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
−
|{{collaborator|logo|isomics}}|{{collaborator|longname|isomics}} <- Replace this logo with yours
+
|{{collaborator|logo|uofu}}|{{collaborator|longname|uofu}}
−
|{{collaborator|logo|spl}}|{{collaborator|longname|spl}}  <-Replace this logo with yours
 
 
}}
 
}}
 
{{documentation/{{documentation/version}}/module-introduction-end}}
 
{{documentation/{{documentation/version}}/module-introduction-end}}
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Module Description}}
+
{{documentation/{{documentation/version}}/extension-section|Extension Description}}
−
N/A
+
{|
−
<!--
+
|
−
Here comes a description what the module is good for. Explain briefly how it works and point to the [[documentation/{{documentation/version}}/Modules/{{documentation/modulename}}#References|references]] giving more details on the algorithm.
+
[[Image:CMRTK-logo.png]]
−
 
+
|
−
If you are documenting a CLI, the description should be extracted from the corresponding XML description. This could be done automatically using the following wiki template:<pre>{{documentation/{{documentation/version}}/module-description}}
+
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.  
−
 
+
|
−
{{documentation/{{documentation/version}}/module-description}}
+
|}
−
-->
 
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Use Cases}}
+
{{documentation/{{documentation/version}}/extension-section|Modules}}
−
N/A
 
  
 +
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleCMRToolkitWizard|CMR Toolkit Wizard]]
 +
*[[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/SlicerModuleCardiacRegistration|Cardiac MRI Registration]]
 +
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleCardiacRegistrationBRAINSFit|Cardiac MRI Registration Using BRAINSFit]]
 +
*[[Documentation/{{documentation/version}}/Modules/SlicerModulePVAntrumCut|PV Antrum Cut Filter]]
 +
*[[Documentation/{{documentation/version}}/Modules/SlicerModuleAxialDilate|2D Axial Dilate 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/SlicerModuleConnectedThreshold|Connected Threshold Image Filter]]
 +
*[[Documentation/{{documentation/version}}/Modules/AutomatedLASegmentation|Automated LA Segmentation]]
 +
*[[Documentation/{{documentation/version}}/Modules/LASegmentationWorkflow|LA Segmentation Workflow]]
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Tutorials}}
+
{{documentation/{{documentation/version}}/extension-section|Use Cases}}
−
N/A
+
*Sample data:
 +
** Sixty anonymized datasets containing LGE-MRI image data and segmentations of the left atrium from patients with atrial fibrillation: [http://hdl.handle.net/1926/1755 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: [http://hdl.handle.net/1926/1764 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
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Panels and their use}}
+
{{documentation/{{documentation/version}}/extension-section|Lookup Table}}
−
N/A
+
*[[Documentation/{{documentation/version}}/Modules/CMRToolkitColorLUT|Lookup Table]]
−
<!--
 
−
{{documentation/{{documentation/version}}/module-parametersdescription}}
 
−
-->
 
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Similar Modules}}
+
{{documentation/{{documentation/version}}/extension-section|Tutorials}}
−
N/A
+
*[[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]
  
−
<!-- ---------------------------- -->
 
−
{{documentation/{{documentation/version}}/module-section|References}}
 
−
N/A
 
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Information for Developers}}
+
{{documentation/{{documentation/version}}/extension-section|Information for Developers}}
−
{{documentation/{{documentation/version}}/module-developerinfo}}
+
The source code for this extension can be found at the [https://github.com/carma-center/carma_slicer_extension/ CARMA GitHub repository].
  
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-footer}}
+
{{documentation/{{documentation/version}}/extension-footer}}
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->

Latest revision as of 00:09, 27 October 2015

Home < Documentation < Nightly < Extensions < CardiacMRIToolkit


For the latest Slicer documentation, visit the read-the-docs.


Introduction and Acknowledgements

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.
Authors: Alan Morris, Umme Salma Bengali, CARMA Center, University of Utah
Contributors: Greg Gardner, Josh Cates, Rob MacLeod, Eugene Kholmovski, CARMA Center, University of Utah
Contacts: Alan Morris: <email>alan.morris@carma.utah.edu</email>, Salma Bengali: <email>salma.bengali@carma.utah.edu</email>
Website: Slicer CMR Toolkit
http://carmacenter.org
http://www.na-mic.org/Wiki/index.php/DBP3:Utah

The University of Utah Health Sciences  

Extension Description

CMRTK-logo.png

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

Use Cases

  • Sample 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.

Retrieved from "https://www.slicer.org/w/index.php?title=Documentation/Nightly/Extensions/CardiacMRIToolkit&oldid=43092"