Documentation/Nightly/Modules/LASegmenter

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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.

Contributor: LiangJia Zhu, University of Alabama at Birmingham
Contributor: Yi Gao, Brigham and Women's Hospital
Contributor: Josh Cates, University of Utah
Contributor: Alan Morris, University of Utah
Contributor: Danny Perry, University of Utah
Contributor: Greg Gardner, University of Utah
Contributor: Rob MacLeod, University Utah
Contributor: Allen Tannenbaum, University of Alabama at Birmingham
Contact: LiangJia Zhu, <email>ljzhu@uab.edu</email>

National Alliance for Medical Image Computing (NA-MIC)  
The University of Alabama at Birmingham  
Psychiatry Neuroimaging Laboratory (PNL)  
Scientific Computing and Imaging Institute (SCI)  

Module Description

This module performs the segmentation of the left atrium from MR images. It is an implementation of a region-growing-based method with a shape prior. The module starts from a manually generated seed region inside the left atrium. Then, the growing process gradually captures the whole left atrium region.

Use Cases

This module is specifically designed for the segmentation of the left atrium from MR images.

Tutorials

  • Load source image
    LASegLoad.png


  • Selct Editor module
  1. Choose Master Volume and Merge Volume (label map to be used for the left atrium seed region)
  2. Select PaintEffect and adjust Radius (in mm) so that the painted seed region (a circle) is completetly inside the left atrium
  3. Go to the Axial view, choose a slice that is approximately to the center of the left atrium. Then, draw a circle that lies to the center of the left atrium on the slice

LASegSeedPanel.pngLASegSeedImage.png


  • Go to Segmentation->Left Atrium Segmentation module
  1. Select Original Image, Seed Label Image (the one obtained from the Editor module), and select/create Segmentation Results
  2. Adjust parameters if needed
  3. Press Apply button and it takes several mimutes to process one volume

LASegPanel.pngLASegResult.png

Panels and their use

NA

References

L. Zhu, Y. Gao, A. Yezzi, R. MacLeod, J. Cates, A. Tannenbaum. Automatic Segmentation of the Left Atrium from MRI Images Using Salient Feature and Contour Evolution, IEEE Engineering in Medicine and Biology Conference(EMBC), 2012.

Information for Developers