TOWARDS RELIABLE AUTOFOCUSING IN AUTOMATED MICROSCOPY
Silvie Luisa Brázdilová
2007
Abstract
The results presented in this paper are twofold. First, autofocusing in automated microscopy is studied and evaluated with respect to biomedical samples whose images can have more than one in-focus planes. While the proposed procedure for finding the maximum of a focus function in a short time works satisfactorily, the focus function itself is identified as the weakest link of the whole process. Second, an interesting property of functions used for genetic programming, and an algorithm for generating new individuals are introduced. Their usefulness and applicability are demonstrated on the problem of finding a new focus function for automated autofocusing in microscopy.
References
- Boddeke, F. R. (1999). Quantitative Fluorescence Microscopy. PhD thesis, Technische Universiteit Delft.
- Boddeke, F. R., van Vliet, L. J., Netten, H., and Young, I. T. (1994). Autofocusing in microscopy based on the otf and sampling. Bioimaging, 2:193-203.
- 3. Netten's filter Bueno-Ibarra, M. A., Í lvarez Borrego, J., Acho, L., and Chávez-Sánchez, M. C. (2005). Fast autofocus algorithm for automated microscopes. Optical Engineering, 44.
- Firestone, L., Cook, K., Culp, K., Talsania, N., and Preston, K. (1991). Comparison of autofocus methods for automated microscopy. Cytometry, 12:195-206.
- Geusebroek, J., Cornelissen, F., Smeulders, A., and Geerts, H. (2000). Robust autofocusing in microscopy. Cytometry, 39:1-9.
- Groen, F. C., Young, I. T., and Ligthart, G. (1985). A comparison of different focus functions for use in autofocus algorithms. Cytometry, 6:81-91.
- Koza, J. R. (1992). Genetic Programming: On the Programming of Computers by Means of Natural Selection. MIT Press.
- Kozubek, M., Kozubek, S., Lukás?ová, E., Marec?ková, A., Bártová, E., Skalníková, M., and Jergová, A. (1999). High-resolution cytometry of fish dots in interphase cell nuclei. Cytometry, 36:279-293.
- Mitchell, M. (1996). An Introduction to Genetic Algorithms. Massachusetts Institute of Technology.
- Montana, D. J. (1995). Strongly typed genetic programming. Evolutionary Computation, 3:199-230.
- Netten, H. (1997). Automated Image Analysis of FISHStained Cell Nuclei. PhD thesis, Delft University of Technology.
- Santos, A., Ortiz de Solórzano, C., Vaquero, J. J., Pen˜a, J. M., Malpica, N., and del Pozo, F. (1997). Evaluation of autofocus functions in molecular cytogenetic analysis. Journal of Microscopy, 188:264-272.
- Silva, S. and Almeida, J. (2003a). Dynamic maximum tree depth - a simple technique for avoiding bloat in treebased gp. In Proceedings of the Genetic and Evolutionary Computation Conference (GECCO-2003).
- Silva, S. and Almeida, J. (2003b). Gplab - a genetic programming toolbox for matlab. In Proceedings of the Nordic MATLAB Conference (NMC-2003), pages 273-278.
- Sun, Y., Duthaler, S., and Nelson, B. J. (2004). Autofocusing in computer microscopy: Selecting the optimal focus algorithm. Microscopy Research and Technique, 65:139-149.
Paper Citation
in Harvard Style
Luisa Brázdilová S. (2007). TOWARDS RELIABLE AUTOFOCUSING IN AUTOMATED MICROSCOPY . In Proceedings of the Fourth International Conference on Informatics in Control, Automation and Robotics - Volume 1: ICINCO, ISBN 978-972-8865-82-5, pages 440-447. DOI: 10.5220/0001639704400447
in Bibtex Style
@conference{icinco07,
author={Silvie Luisa Brázdilová},
title={TOWARDS RELIABLE AUTOFOCUSING IN AUTOMATED MICROSCOPY},
booktitle={Proceedings of the Fourth International Conference on Informatics in Control, Automation and Robotics - Volume 1: ICINCO,},
year={2007},
pages={440-447},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0001639704400447},
isbn={978-972-8865-82-5},
}
in EndNote Style
TY - CONF
JO - Proceedings of the Fourth International Conference on Informatics in Control, Automation and Robotics - Volume 1: ICINCO,
TI - TOWARDS RELIABLE AUTOFOCUSING IN AUTOMATED MICROSCOPY
SN - 978-972-8865-82-5
AU - Luisa Brázdilová S.
PY - 2007
SP - 440
EP - 447
DO - 10.5220/0001639704400447