Documentation/Nightly/Extensions/OpenCAD

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

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...

Module Description

The OpenCAD is designed to segment tumors from DCE-MRI datasets which include 1 pre-contrast image and 2-4 post-contrast images at different time points. OpenCAD uses blackbox methods to calculate the wash-in and wash-out slopes of the contrast dye based on voxel intensity values. The segmentation output is a Label Map with red, yellow, and blue colors respectively identifying washout, plateau, and persistent voxels:

• Red for Washout curve
  • Slope of delayed curve < -0.2 | Type III
• Yellow for Plateau curve
  • -0.2 < Slope of delayed curve < 0.2 | Type II
• Blue for Persistent curve
  • Slope of delayed curve > 0.2 | Type I

Features

• Interactive Charting -
• Volume Rendering -
• Label Statistics -

Tutorials

OpenCAD Tutorial (pptx)‎

Data sets

Breast DCE-MRI Data Set 1 (zip file containing the nrrd volumes for the OpenCAD tutorial)‎

Breast DCE-MRI Data Set 2 (zip file containing additional test set of nrrd volumes)‎

Liver DCE-MRI Data Set 1 (zip file containing additional test set of nrrd volumes)‎

Panels and their use

The GUI of the OpenCAD module contains 5 sections: Select DCE-MRI Volumes for Segmentation Pre-contrast Volume: First Post-contrast Volume: Second Post-contrast Volume: Third Post-contrast Volume: Fourth Post-contrast Volume: Use Label Map as ROI: Select or Create Output OpenCAD Label Map Output OpenCAD Label Map: Legend | |: Display Volume Rendering: Calculate OpenCAD Label statistics: Set Advanced Segmentation Parameters Minimum Threshold of Increase: Type I (Persistent) Curve Minimum Slope: Type 3 (Washout) Curve Maximum Slope: OpenCAD Label Statistics Statistics Table: Chart Statistics: Menu Items: Volume, Curve Type, Voxel Count, Volume mm^3, Volume cc, Minimum Intensity, Maximum Intensity, Mean Intensity, Standard Deviation Ignore Zero label: Interactive Charting Settings Enable/Disable Interactive Charting:

OpenCAD GUI

Similar Modules

N/A

References

N/A

Information for Developers

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