Documentation/Nightly/Modules/HeterogeneityCAD

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OpenCAD.PNG

Introduction and Acknowledgements

Extension: OpenCAD
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

Module Description

The HeterogeneityCAD module is an image feature extraction toolbox primarily to quantify the heterogeneity of tumor images and their label maps.


Image Features and Metrics

  • First-Order and Distribution Statistics
    • Data Node
    • Voxel Count
    • Energy
    • Entropy
    • Minimum Intensity
    • Maximum Intensity
    • Mean Intensity
    • Median Intensity
    • Range
    • Mean Deviation
    • Root Mean Square
    • Standard Deviation
    • Skewness
    • Kurtosis
    • Variance
    • Uniformity
  • Shape and Morphology Metrics
    • Volume mm^3
    • Volume cc
    • Surface Area mm^2
    • Surface:Volume Ratio
    • Compactness 1
    • Compactness 2
    • Maximum 3D Diameter
    • Spherical Disproportion
    • Sphericity
  • Renyi Dimensions
    • Box-Counting Dimension
    • Information Dimension
    • Correlation Dimension
  • Geometrical Measures
    • Extruded Surface Area
    • Extruded Volume
    • Extruded Surface:Volume Ratio
    • Extruded Box-Dimension
  • Texture: Gray-Level Co-occurrence Matrix (GLCM)
    • Autocorrelation
    • Cluster Prominence
    • Cluster Shade
    • Cluster Tendency
    • Contrast
    • Correlation
    • Difference Entropy
    • Dissimilarity
    • Energy (GLCM)
    • Entropy(H)
    • Homogeneity 1
    • Homogeneity 2
    • Informational Measure of Correlation 1 (IMC1)
    • Informational Measure of Correlation 2 (IMC2)
    • Inverse Difference Moment Normalized (IDMN)
    • Inverse Difference Normalized (IDN)
    • Inverse Variance
    • Maximum Probability
    • Sum Average
    • Sum Entropy
    • Sum Variance
    • Variance (GLCM)
  • Texture: Gray-Level Run Length Matrix (GLRL)
    • Short Run Emphasis (SRE)
    • Long Run Emphasis (LRE)
    • Gray Level Non-Uniformity (GLN)
    • Run Length Non-Uniformity (RLN)
    • Run Percentage (RP)
    • Low Gray Level Run Emphasis (LGLRE)
    • High Gray Level Run Emphasis (HGLRE)
    • Short Run Low Gray Level Emphasis (SRLGLE)
    • Short Run High Gray Level Emphasis (SRHGLE)
    • Long Run Low Gray Level Emphasis (LRLGLE)
    • Long Run High Gray Level Emphasis (LRHGLE)

Tutorials

Data sets

Panels and their use


Quick Instructions for Use

  • Select a nrrd volume
  • Select a segmentation label map to use as ROI
  • Click "Apply HeterogeneityCAD"

Module Output

Similar Modules

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References

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Information for Developers

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