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

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*[[Documentation/{{documentation/version}}/Modules/SegmentCAD|SegmentCAD: Tumor Segmentation from DCE-MRI]]
 
*[[Documentation/{{documentation/version}}/Modules/SegmentCAD|SegmentCAD: Tumor Segmentation from DCE-MRI]]
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*[[Documentation/{{documentation/version}}/Modules/HeterogeneityCAD|HeterogeneityCAD: Analyze Heterogeneity of Tumor Images and their Parameter Maps using various metrics (distribution statistics, texture-based, fractal dimensions, geometric measures, etc)]]
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*[[Documentation/{{documentation/version}}/Modules/HeterogeneityCAD|HeterogeneityCAD: Analyze Heterogeneity of Tumor Images and their Parameter Maps using various metrics)]]
  
  
 
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{{documentation/{{documentation/version}}/extension-section|Extension Description}}
 
{{documentation/{{documentation/version}}/extension-section|Extension Description}}
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*The SegmentCAD module is designed to segment tumors from DCE-MRI datasets which include a pre-contrast image and post-contrast images at different time points. {{documentation/modulename}} uses blackbox methods to calculate the wash-in and wash-out slopes from the time-intensity curves. The segmentation output is a Label Map with red, yellow, and blue colors respectively identifying washout (Type III), plateau (Type II), and persistent (Type I) voxels.
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*The SegmentCAD module is designed to segment tumors from DCE-MRI datasets which include a pre-contrast image and post-contrast images at different time points.  
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*The HeterogeneityCAD module is under development and will apply metrics to analyze the heterogeneity of tumor images and their parameter maps.
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**SegmentCAD uses blackbox methods to calculate the wash-in and wash-out slopes from the time-intensity curves.  
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**The segmentation output is a Label Map with red, yellow, and blue colors respectively identifying washout (Type III), plateau (Type II), and persistent (Type I) voxels.
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*The HeterogeneityCAD module is an extensible, image feature extraction toolbox primarily to quantify the heterogeneity of tumor images and their label maps. Metrics have been implemented from a variety of feature classes including:
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**First-Order/Histogram statistics
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**Morphology/Shape measures and Geometrical (4D Extrusion) measures
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**Renyi/Fractal dimensions
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**Texture features computed from Gray-Level Co-occurrence Matrices (GLCM) and from Gray-Level Run Length matrices (GLRL)
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Revision as of 16:55, 24 July 2014

Home < Documentation < Nightly < Extensions < OpenCAD


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


OpenCAD.PNG

Introduction and Acknowledgements

This work is supported by NA-MIC, NCIGT, and the Slicer Community.
Author: Vivek Narayan, Jayender Jagadeesan
Contact: Jayender Jagadeesan <email> jayender@bwh.harvard.edu</email>

NA-MIC  
NCIGT  
SPL  

This project is supported by P41 RR019703/RR/NCRR NIH HHS/United States, P01 CA067165/CA/NCI NIH HHS/United States and P41 EB015898/EB/NIBIB NIH HHS/United States


Modules


Extension Description

  • The SegmentCAD module is designed to segment tumors from DCE-MRI datasets which include a pre-contrast image and post-contrast images at different time points.
    • SegmentCAD uses blackbox methods to calculate the wash-in and wash-out slopes from the time-intensity curves.
    • The segmentation output is a Label Map with red, yellow, and blue colors respectively identifying washout (Type III), plateau (Type II), and persistent (Type I) voxels.
  • The HeterogeneityCAD module is an extensible, image feature extraction toolbox primarily to quantify the heterogeneity of tumor images and their label maps. Metrics have been implemented from a variety of feature classes including:
    • First-Order/Histogram statistics
    • Morphology/Shape measures and Geometrical (4D Extrusion) measures
    • Renyi/Fractal dimensions
    • Texture features computed from Gray-Level Co-occurrence Matrices (GLCM) and from Gray-Level Run Length matrices (GLRL)


Tutorials

Data sets

Quick Instructions for Use

  • SegmentCAD (Click link for detailed description)
    • Select the pre-contrast volume
    • Select the first post-contrast volume
    • Select the second post-contrast volume
    • Select the third post-contrast volume
    • Select the fourth post-contrast volume
    • Create or select a label map volume node to represent the output of the segmentation
    • Click "Apply OpenCAD Segmentation"

Similar Modules

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References

N/A

Information for Developers

Source code: https://github.com/vnarayan13/Slicer-OpenCAD

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