The enumeration of colony forming units (CFU) is one of the most used methods to evaluate cell viability, since it is highly sensitive to small concentrations however, it presents several drawbacks such as low accuracy and large time consume. ![]() IntroductionĪutomated cell counting on fluorescence-stained bacteria images is a fast and accurate method for microbial quantification, that is rapidly replacing conventional approaches, such as colony counts or manual hemocytometer cell numbering. © 2020 Optical Society of America under the terms of the OSA Open Access Publishing Agreement 1. Overall, we found that the Bernsen local thresholding furnishes the best results also with respect to cell counting and morphology analysis. Some thresholding algorithms, such as Otsu, outperform other approaches, with respect to a pixel-by-pixel analysis. We test the performances of 16 global and 9 local ImageJ thresholding algorithms on both experimental and synthetic confocal images of Escherichia coli and Staphylococcus aureus, evaluating the misclassification errors according to standard pattern recognition parameters. Note: Author names will be searched in the keywords field, also, but that may find papers where the person is mentioned, rather than papers they authored.īinarization is a key process in microscopy cell counting and cytometry analysis that is performed before segmentation to identify a cell within the background.Use a comma to separate multiple people: J Smith, RL Jones, Macarthur.Use these formats for best results: Smith or J Smith.For best results, use the separate Authors field to search for author names.Use quotation marks " " around specific phrases where you want the entire phrase only.Question mark (?) - Example: "gr?y" retrieves documents containing "grey" or "gray".Asterisk ( * ) - Example: "elect*" retrieves documents containing "electron," "electronic," and "electricity".Improve efficiency in your search by using wildcards. ![]() Example: (photons AND downconversion) - pump.Example: (diode OR solid-state) AND laser.Note the Boolean sign must be in upper-case. Separate search groups with parentheses and Booleans.Keep it simple - don't use too many different parameters.
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