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

Vičar, Tomáš; Balvan, Jan; Jaroš, Josef; Jug, Florian; Kolář, Radim; Masařík, Michal; Gumulec, Jaromír

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

Files

s1285901928808.pdf(3.59 MB)

Date

2019-07-28

Authors

Vičar, Tomáš

Balvan, Jan

Jaroš, Josef

Jug, Florian

Kolář, Radim

Masařík, Michal

Gumulec, Jaromír

ORCID

Publisher

BMC

Altmetrics

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

Citation

BMC BIOINFORMATICS. 2019, vol. 20, issue 1, p. 1-25.
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2880-8

Document type

Peer-reviewed

Document version

Published version

Language of document

en

Document licence

Creative Commons Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/