Automated counting of yeast colonies using the Fast Radial Transform algorithm

0355696 - ÚTIA 2011 RIV PT eng C - Conference Paper (international conference)
Schier, Jan - Kovář, Bohumil
Automated counting of yeast colonies using the Fast Radial Transform algorithm.
BIOSTEC 2011 4th International Joint Conference on Biomedical Engineering Systems and Technologies. Lisabon: SciTePress, 2011 - (Pellegrini, M.; Fred, A.; Filipe, J.; Gamboa, H.), s. 22-27. ISBN 978-989-8425-36-2.
[BIOINFORMATICS 2011 International Conference on Bioinformatics Models, Methods and Algorithms. Řím (IT), 26.01.2011-29.1.2011]
R&D Projects: GA MŠMT(CZ) 1M0567
Institutional research plan: CEZ:AV0Z10750506
Keywords : Colony counter * Yeast colonies * Image segmentation * Fast radial transform
Subject RIV: IN - Informatics, Computer Science
http://library.utia.cas.cz/separaty/2011/ZS/schier-automated counting of yeast colonies using the fast radial transform algorithm.pdf

A method for counting yeast colonies in images of Petri dishes, based on the Fast Radial Transform by Loy and Zelinsky, is introduced and evaluated in the paper. Images, produced by a general-purpose imaging setup, are considered. The performance of the method has been evaluated with a test set of 245 images. The images typically contained between 10 and 70 colonies per dish, with relative coverage of the dish less than 10% of the area. The average counting error (missed colonies) on this set was under 4%. A tool, implementing the method, has been developed in Matlab. The tool provides a batch mode for processing of larger image sets prepared beforehand in the darkroom and it automates the process of counting as much as possible. It is available for download or can be requested from the authors of the paper, in both cases free on charge.
Permanent Link: http://hdl.handle.net/11104/0194405