Automated Counting of Bacterial Colonies

A function to automate bacterial colony counting in images of plated agar in a Petri dish.
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Actualizado 2 abr 2012

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Provides colony_count.m to automate counting of bacterial colonies.

The approach is as follows:

1. Use Hough transform to locate Petri dish.
2. Threshold with Otsu's method.
3. Count colonies as regional maxima in the original image which are present in the segmentation.

David Young's circular Hough transform functions are required. They are available here:

Currently, a range of Petri dish radii is required as a parameter.

This program was originally developed for a Stack Overflow question found here:

Future plans are to increase versatility by automating parameter selection and reducing sensitivity to experimental and imaging conditions (lighting, bright/dark field, media color). Features suggested in comments will be considered for addition.

Citar como

Daniel Asarnow (2024). Automated Counting of Bacterial Colonies (, MATLAB Central File Exchange. Recuperado .

Compatibilidad con la versión de MATLAB
Se creó con R2011b
Compatible con cualquier versión
Compatibilidad con las plataformas
Windows macOS Linux
Más información sobre Biomedical Imaging en Help Center y MATLAB Answers.

Inspirado por: Hough transform for circles

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