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Applied Optics

Applied Optics


  • Editor: Joseph N. Mait
  • Vol. 53, Iss. 20 — Jul. 10, 2014
  • pp: 4509–4518

Autofocus using adaptive prediction approximation combined search for the fluorescence microscope in second-generation DNA sequencing system

Hancong Xu, Jinfeng Liu, Yang Li, Yan Yin, Chenxu Zhu, and Hua Lu  »View Author Affiliations

Applied Optics, Vol. 53, Issue 20, pp. 4509-4518 (2014)

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Autofocus is an important technique for high-speed image acquisition in the second-generation DNA sequencing system, and this paper studies the passive focus algorithm for the system, which consists of two parts: focus measurement (FM) and focus search (FS). Based on the properties of DNA chips’ images, we choose the normalized variance as the FM algorithm and develop a new robust FS named adaptive prediction approximation combined search (APACS). APACS utilizes golden section search (GSS) to approximate the focus position and engages the curve-fitting search (CFS) to predict the position simultaneously in every step of GSS. When the difference between consecutive predictions meets the set precision, the search finishes. Otherwise, it ends as GSS. In APACS, we also propose an estimation method, named the combination of centroid estimation and overdetermined equations estimation by least squares solution, to calculate the initial vector for the nonlinear equations in APACS prediction, which reduces the iterations and accelerates the search. The simulation and measured results demonstrate that APACS not only maintains the stability but also reduces the focus time compared with GSS and CFS, which indicates APACS is a robust and fast FS for the fluorescence microscope in a sequencing system.

© 2014 Optical Society of America

OCIS Codes
(170.2520) Medical optics and biotechnology : Fluorescence microscopy
(170.3880) Medical optics and biotechnology : Medical and biological imaging
(170.3890) Medical optics and biotechnology : Medical optics instrumentation

ToC Category:
Medical Optics and Biotechnology

Original Manuscript: March 7, 2014
Revised Manuscript: May 20, 2014
Manuscript Accepted: May 24, 2014
Published: July 9, 2014

Virtual Issues
Vol. 9, Iss. 9 Virtual Journal for Biomedical Optics

Hancong Xu, Jinfeng Liu, Yang Li, Yan Yin, Chenxu Zhu, and Hua Lu, "Autofocus using adaptive prediction approximation combined search for the fluorescence microscope in second-generation DNA sequencing system," Appl. Opt. 53, 4509-4518 (2014)

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