Slicer3:Module:Level-Set Segmentation Framework-Documentation

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Level-Set Segmentation Framework

Bubble seeding
Resulting segmentation

General Information

This framework corresponds with a new category of Slicer modules for Level-Set segmentation using Geodesic Active Countours (Caselles et al.)

This framework is useful when dealing with segmentations of regions that present edges with respect to the background.

Authors, Collaborators & Contact

  • Author: Carlos S. Mendoza
  • Contact:

Module Description

The modules in the framework support different tasks in the segmentation realization:

-For a level-set segmentation to be performed a seed image must be provided. A module called Bubble Maker was developed, that takes fiducials and a vector a integers as input, and produces as output a label image composed of bubbles centered in the fiducials with radii such as the integers provided.

-For a level-set segmentation to be performed a feature image has to be extracted from the target image. That image is a smoothed, diffrentiated and remapped version of the original image. A tunable module called Target Preprocessing was developed.

-In order for the preprocessing to take place in pseudo-interactiva time frames a region of interest must be provided by the user, preventing from unuseful calculations. A module called Region Selector was developed, that takes as input three rectangles, one in each coordinate plane to define a parallelepiped.

Finally a module called Level-set label map evolver was developed, which takes an initial label image and a feature image as input and performs a Geodesic Active Contours evolution on the label image according to the feature image and to a different terms in the level-set equation. The evolution takes place for a customizable number of iterations.

The output is a label image that can be used to produce a model.


See modules documentation.

Known bugs

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Usability issues

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Source code & documentation

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Links to documentation generated by doxygen.


This work was developed on financial support from the University of Sevilla, Spain. Most of the development took place in the Surgical Planning Laboratory, Harvard Medical School and Brigham and Women's Hospital, under the supervision of Mr. Steve Pieper Ph.D.


V. Caselles, R. Kimmel, and G. Sapiro. Geodesic active contours. International Journal on Computer Vision, 22(1):61–97, 1997.