Čepa, Martin. 2018. "Segmentation of Total Cell Area in Brightfield Microscopy Images" Methods and Protocols 1, no. 4: 43. https://doi.org/10.3390/mps1040043

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Čepa, M. Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods Protoc. 2018, 1, 43. https://doi.org/10.3390/mps1040043

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Čepa M. Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods and Protocols. 2018; 1(4):43. https://doi.org/10.3390/mps1040043

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Čepa, M. (2018). Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods and Protocols, 1(4), 43. https://doi.org/10.3390/mps1040043

Čepa, M. (2018). Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods and Protocols, 1(4), 43. https://doi.org/10.3390/mps1040043

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Čepa M. Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods and Protocols. 2018; 1(4):43. https://doi.org/10.3390/mps1040043

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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. Keywords: brightfield segmentation; microscopy; ImageJ; Fiji; image analysis; cells

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Feature papers are submitted upon individual invitation or recommendation by the scientific editors and must receive positive feedback from the reviewers.

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Čepa, Martin. 2018. "Segmentation of Total Cell Area in Brightfield Microscopy Images" Methods and Protocols 1, no. 4: 43. https://doi.org/10.3390/mps1040043

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Čepa, M. Segmentation of Total Cell Area in Brightfield Microscopy Images. Methods Protoc. 2018, 1, 43. https://doi.org/10.3390/mps1040043

Cell structures that appear transparent with brightfield illumination can be viewed with better contrast and detail using darkfield. Additionally, non-uniform ...

2023613 — Darkfield microscopy needs to illuminate the sample with oblique or off-axis light. Brightfield microscopy involves passing light directly ...