We have worked on a number of different general methods for image segmentation [1] [2] with a recent focus on segmentation methods based on convex relaxations which incorporate domain knowledge (for example in the form of encouraging directed orientation transitions [3] [4] [5]). We have also devised segmentation methods for the segmentations of fiber bundles from diffusion weighted images [6] as well as a method to extract connectivity information from diffusion tensor images [7] and have most recently explored a segmentation method which can impose constraints on the segmentation area [8].


  1. Continuous Maximal Flows and Wulff Shapes: Application to MRFs,
    Zach, C., Niethammer M., and Frahm J. - M.
    , Proceedings of the Conference on Computer Vision and Pattern Recognition (CVPR), p.1911–1918, (2009)
  2. A variational framework combining level-sets and thresholding,
    Dambreville, S., Niethammer M., Yezzi A., and Tannenbaum A.
    , p.1–10, (2007)
  3. Globally Optimal Finsler Active Contours,
    Zach, C., Shan L., Frahm J. - M., and Niethammer M.
    , DAGM, p.552–561, (2009)
  4. Automatic three-label bone segmentation from knee MR images,
    Shan, L., Zach C., and Niethammer M.
    , International Symposium on Biomedical Imaging (ISBI), (2010)
  5. Automatic Bone Segmentation and Alignment from MR knee images,
    Shan, L., Zach C., Styner M., Charles C., and Niethammer M.
    , SPIE Medical Imaging, (2010)
  6. Near-tubular fiber bundle segmentation for diffusion weighted imaging: segmentation through frame reorientation.,
    Niethammer, M., Zach C., Melonakos J., and Tannenbaum A.
    , NeuroImage, 2009 Mar, Volume 45, Issue 1 Suppl, p.S123-32, (2009)
  7. DTI Connectivity by Segmentation,
    Niethammer, M., Boucharin A., Zach C., Maltbie E., Shi Y., and Styner M.
    , MICCAI, International Workshop on Medical Imaging and Augmented Reality (MIAR), (2010)
  8. Segmentation with area constraints.,
    Niethammer, Marc, and Zach Christopher
    , Medical image analysis, 2013 Jan, Volume 17, Issue 1, p.101-12, (2013)