NAMIC:Interactive Cut

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Home < NAMIC:Interactive Cut

Key Investigators

Jan Egger, Tina Kapur, BWH

Steve Pieper, Isomics

Project Description


  • To implement a graph-cut based interactive segmentation algorithm in Slicer

Approach, Plan

  • In this project, we want to realize an interactive graph-based segmentation approach in 3D Slicer that provides real-time feedback of the segmentation result to the user during the segmentation process.


  • To be filled out as we go.


  1. Boykov Y., Kolmogorov V. An Experimental Comparison of Min-Cut/Max-Flow Algorithms for Energy Minimization in Vision. IEEE Transactions on PAMI, Vol. 26, No. 9, pp. 1124-1137, Sept. 2004.
  2. Schwarzenberg R. Semi-Automatic, Graph-Based Vertebra Segmentation in MRI Data. Bachelor Thesis, Department of Mathematics and Computer Science, University of Marburg, Germany, pp. 1-68, 2012.

Publications Describing the Algorithms

  1. Schwarzenberg R., Freisleben B., Kikinis R., Nimsky C., Egger J. A Cube-Based Approach to Segment Vertebrae in MRI-Acquisitions (in German). Proceedings of Bildverarbeitung für die Medizin (BVM), Heidelberg, Germany, Springer, pp. 69-74, 2013.
  1. Egger J., Freisleben B., Nimsky C., Kapur T. Template-Cut: A Pattern-Based Segmentation Paradigm. Nature - Scientific Reports, Nature Publishing Group (NPG), 2(420), 2012.
  2. Egger J., Kapur T., Dukatz T., Kolodziej M., Zukić D., Freisleben B., Nimsky C. Square-Cut: A Segmentation Algorithm on the Basis of a Rectangle Shape. PLoS One 7(2):e31064, 2012.
  3. Egger J., Colen R., Freisleben B., Nimsky C. Manual Refinement System for Graph-based Segmentation Results in the Medical Domain. J Med Syst., 36(5):2829-39, 2012.
  4. Egger J., Bauer M.H.A., Kuhnt D., Carl B., Kappus C., Freisleben B., Nimsky C. Nugget-Cut: A Segmentation Scheme for Spherically- and Elliptically-Shaped 3D Objects. DAGM, LNCS 6376:383-392, Springer, 2010.

External Libraries/Source Code