From Segmentation to Clustering: Advancing Algorithms for Grouping Microbial Colonies on Agar Plates

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26220%2F23%3APU149460" target="_blank" >RIV/00216305:26220/23:PU149460 - isvavai.cz</a>
Result on the web
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DOI - Digital Object Identifier
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Result language
angličtina
Original language name
From Segmentation to Clustering: Advancing Algorithms for Grouping Microbial Colonies on Agar Plates
Original language description
Agar plates are essential in microbiology, yet manual intervention remains common for tasks like colony-picking, especially in smaller laboratories. This paper addresses the research gap of clustering microbes within agar plate images to advance automated solutions. Three innovative clustering approaches based on visual properties are presented. Using synthetic agar plate images with annotated microbes, these algorithms are developed and evaluated, with performance assessed using the V-measure metric. Results reveal challenges in pixel-level clustering without segmentation masks (V-measure: 0.284), while U-Net autoencoder features with OPTICS show reasonable performance (V-measure: 0.705). K-means with a colony extraction pipeline excels (V-measure: 0.942), emphasizing the importance of high-level colony features. These solutions offer potential enhancements for colony-picking robots and advanced analysis. This research significantly contributes to agar plate analysis, paving the way for future automated colony analysis and streamlined lab workflows.
Czech name
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Czech description
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Project
<a href="/en/project/VK01010107" target="_blank" >VK01010107: Application of artificial intelligence for forensic identification of soil phases</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2023
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Article name in the collection
2023 15th International Congress on Ultra Modern Telecommunications and Control Systems and Workshops (ICUMT)
ISBN
979-8-3503-9328-6
ISSN
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e-ISSN
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Number of pages
6
Pages from-to
176-181
Publisher name
Neuveden
Place of publication
Ghent
Event location
Gent, Belgium
Event date
Oct 30, 2023
Type of event by nationality
WRD - Celosvětová akce
UT code for WoS article
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