Incorporating user input in template-based segmentation

Camille Vidal, Dale Beggs, Laurent Younes, Sanjay K. Jain, Bruno Jedynak

Research output: Chapter in Book/Report/Conference proceedingConference contribution


We present a simple and elegant method to incorporate user input in a template-based segmentation method for diseased organs. The user provides a partial segmentation of the organ of interest, which is used to guide the template towards its target. The user also highlights some elements of the background that should be excluded from the final segmentation. We derive by likelihood maximization a registration algorithm from a simple statistical image model in which the user labels are modeled as Bernoulli random variables. The resulting registration algorithm minimizes the sum of square differences between the binary template and the user labels, while preventing the template from shrinking, and penalizing for the inclusion of background elements into the final segmentation. We assess the performance of the proposed algorithm on synthetic images in which the amount of user annotation is controlled. We demonstrate our algorithm on the segmentation of the lungs of Mycobacterium tuberculosis infected mice from μCT images.

Original languageEnglish (US)
Title of host publication2011 8th IEEE International Symposium on Biomedical Imaging
Subtitle of host publicationFrom Nano to Macro, ISBI'11
PublisherIEEE Computer Society
Number of pages4
ISBN (Print)9781424441280
StatePublished - 2011
Event2011 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI'11 - Chicago, IL, United States
Duration: Mar 30 2011Apr 2 2011

Publication series

NameProceedings - International Symposium on Biomedical Imaging
ISSN (Print)1945-7928
ISSN (Electronic)1945-8452


Other2011 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI'11
Country/TerritoryUnited States
CityChicago, IL


  • Diseased Organs
  • Registration
  • Template-based Segmentation
  • User Input

ASJC Scopus subject areas

  • Biomedical Engineering
  • Radiology Nuclear Medicine and imaging


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