Publication detail

Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison

VIČAR, T. BALVAN, J. JAROŠ, J. JUG, F. KOLÁŘ, R. MASAŘÍK, M. GUMULEC, J.

Original Title

Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison

Type

journal article in Web of Science

Language

English

Original Abstract

Because of its non-destructive nature, label-free imaging is an important strategy for studying biological processes. However, routine microscopic techniques like phase contrast or DIC suffer from shadow-cast artifacts making automatic segmentation challenging. The aim of this study was to compare the segmentation efficacy of published steps of segmentation work-flow (image reconstruction, foreground segmentation, cell detection (seed-point extraction) and cell (instance) segmentation) on a dataset of the same cells from multiple contrast microscopic modalities.

Keywords

Microscopy, Cell segmentation, Image reconstruction, Methods comparison, Differential contrast image, Quantitative phase imaging, Laplacian of Gaussians

Authors

VIČAR, T.; BALVAN, J.; JAROŠ, J.; JUG, F.; KOLÁŘ, R.; MASAŘÍK, M.; GUMULEC, J.

Released

28. 7. 2019

Publisher

BMC

Location

London, England

ISBN

1471-2105

Periodical

BMC BIOINFORMATICS

Year of study

20

Number

1

State

United Kingdom of Great Britain and Northern Ireland

Pages from

1

Pages to

25

Pages count

25

URL

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2880-8

Full text in the Digital Library

http://hdl.handle.net/11012/195836

BibTex

@article{BUT158175,
  author="Tomáš {Vičar} and Jan {Balvan} and Josef {Jaroš} and Florian {Jug} and Radim {Kolář} and Michal {Masařík} and Jaromír {Gumulec}",
  title="Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison",
  journal="BMC BIOINFORMATICS",
  year="2019",
  volume="20",
  number="1",
  pages="1--25",
  doi="10.1186/s12859-019-2880-8",
  issn="1471-2105",
  url="https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2880-8"
}