Documentation/Nightly/Modules/HeterogeneityCAD

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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)

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 N/A References N/A Information for Developers Source code: https://github.com/vnarayan13/Slicer-OpenCAD