Boundary fitting based segmentation of fluorescence microscopy images

Soonam Lee, Paul Salama, Kenneth W. Dunn, Edward J. Delp

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

5 Scopus citations

Abstract

Segmentation is a fundamental step in quantifying characteristics, such as volume, shape, and orientation of cells and/or tissue. However, quantification of these characteristics still poses a challenge due to the unique properties of microscopy volumes. This paper proposes a 2D segmentation method that utilizes a combination of adaptive and global thresholding, potentials, z direction refinement, branch pruning, end point matching, and boundary fitting methods to delineate tubular objects in microscopy volumes. Experimental results demonstrate that the proposed method achieves better performance than an active contours based scheme.

Original languageEnglish (US)
Title of host publicationProceedings of SPIE-IS and T Electronic Imaging - Imaging and Multimedia Analytics in a Web and Mobile World 2015
EditorsJan P. Allebach, Zhigang Fan, Qian Lin
PublisherSPIE
ISBN (Electronic)9781628414981
DOIs
StatePublished - Jan 1 2015
EventImaging and Multimedia Analytics in a Web and Mobile World 2015 - San Francisco, United States
Duration: Feb 11 2015Feb 12 2015

Publication series

NameProceedings of SPIE - The International Society for Optical Engineering
Volume9408
ISSN (Print)0277-786X
ISSN (Electronic)1996-756X

Other

OtherImaging and Multimedia Analytics in a Web and Mobile World 2015
CountryUnited States
CitySan Francisco
Period2/11/152/12/15

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Keywords

  • Adaptive thresholding
  • Biomedical imaging
  • Ellipse fitting
  • Image segmentation

ASJC Scopus subject areas

  • Electronic, Optical and Magnetic Materials
  • Condensed Matter Physics
  • Computer Science Applications
  • Applied Mathematics
  • Electrical and Electronic Engineering

Cite this

Lee, S., Salama, P., Dunn, K. W., & Delp, E. J. (2015). Boundary fitting based segmentation of fluorescence microscopy images. In J. P. Allebach, Z. Fan, & Q. Lin (Eds.), Proceedings of SPIE-IS and T Electronic Imaging - Imaging and Multimedia Analytics in a Web and Mobile World 2015 [940805] (Proceedings of SPIE - The International Society for Optical Engineering; Vol. 9408). SPIE. https://doi.org/10.1117/12.2085417