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, Stony Brook University Contributor: Yi Gao, University of Alabama at Birmingham 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, Stony Brook University Contact: Liangjia Zhu, <email>liangjia.zhu@stonybrook.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
  

• Select 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

• 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

Panels and their use

• Seed Editor Panel

• • Master Volume: the image to be segmented
• Segmenter Panel

Similar Modules

• CARMA

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.