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Methods Protoc. 2018, 1(4), 43; https://doi.org/10.3390/mps1040043

Segmentation of Total Cell Area in Brightfield Microscopy Images

Contipro a.s., Dolní Dobrouč 401, Dolní Dobrouč 561 02, Czech Republic
Received: 4 September 2018 / Revised: 14 November 2018 / Accepted: 14 November 2018 / Published: 19 November 2018
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Abstract

Segmentation is one of the most important steps in microscopy image analysis. Unfortunately, most of the methods use fluorescence images for this task, which is not suitable for analysis that requires a knowledge of area occupied by cells and an experimental design that does not allow necessary labeling. In this protocol, we present a simple method, based on edge detection and morphological operations, that separates total area occupied by cells from the background using only brightfield channel image. The resulting segmented picture can be further used as a mask for fluorescence quantification and other analyses. The whole procedure is carried out in open source software Fiji. View Full-Text
Keywords: brightfield segmentation; microscopy; ImageJ; Fiji; image analysis; cells brightfield segmentation; microscopy; ImageJ; Fiji; image analysis; cells
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).
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Čepa, M. Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods Protoc. 2018, 1, 43.

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