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      •   BUIR Home
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      • Bilkent Theses
      • Theses - Department of Computer Engineering
      • Dept. of Computer Engineering - Master's degree
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      Smart markers for watershed-based cell segmentation

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      Author
      Koyuncu, Can Fahrettin
      Advisor
      Demir, Çiğdem Gündüz
      Date
      2012
      Publisher
      Bilkent University
      Language
      English
      Type
      Thesis
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      Abstract
      Automated cell imaging systems facilitate fast and reliable analysis of biological events at the cellular level. In these systems, the first step is usually cell segmentation that greatly affects the success of the subsequent system steps. On the other hand, similar to other image segmentation problems, cell segmentation is an ill-posed problem that typically necessitates the use of domain specific knowledge to obtain successful segmentations even by human subjects. The approaches that can incorporate this knowledge into their segmentation algorithms have a potential to greatly improve the segmentation results. In this study, we propose a new approach for the effective segmentation of live cells from phase-contrast microscopy. This approach introduces a new set of “smart markers” for a marker-controlled watershed algorithm, for which the identification of its markers is critical. The proposed approach relies on using domain specific knowledge, in the form of visual characteristics of the cells, to define the markers. We evaluate our approach on a total of 1954 cells. The experimental results demonstrate that the proposed approach is quite effective in identifying better markers compared to its counterparts. This will in turn be effective in improving the segmentation performance of a marker-controlled watershed algorithm.
      Keywords
      Marker-controlled watersheds
      Live cell segmentation
      Phase contrast microscopy images
      Cell lines
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      http://hdl.handle.net/11693/15689
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