Microscopic specimen delineation using auto-phase correlation index

Fan, Yilun, Gal, Yaniv and Bradley, Andrew P. (2014). Microscopic specimen delineation using auto-phase correlation index. In: 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI 2014). Proceedings. ISBI'14: IEEE 11th International Symposium on Biomedical Imaging, Beijing, China, (1336-1339). 29 April - 2 May 2014. doi:10.1109/ISBI.2014.6868124

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Author Fan, Yilun
Gal, Yaniv
Bradley, Andrew P.
Title of paper Microscopic specimen delineation using auto-phase correlation index
Conference name ISBI'14: IEEE 11th International Symposium on Biomedical Imaging
Conference location Beijing, China
Conference dates 29 April - 2 May 2014
Convener IEEE
Proceedings title 2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI 2014). Proceedings
Journal name 2014 IEEE 11th International Symposium on Biomedical Imaging, ISBI 2014
Place of Publication Piscataway, NJ, USA
Publisher IEEE
Publication Year 2014
Sub-type Fully published paper
DOI 10.1109/ISBI.2014.6868124
Open Access Status
ISBN 9781467319607
9781467319614
9781467319591
Start page 1336
End page 1339
Total pages 4
Collection year 2015
Language eng
Formatted Abstract/Summary
Rapid and high-quality digital acquisition of microscopic specimens is critically dependent upon an initial low-resolution delineation of the specimen and the construction of a focus map to guide the subsequent high-resolution scan. In this paper, we propose a novel field-of-view (FOV) based algorithm that not only accurately delineates the specimen, but also highlights superior FOVs from which to build the focus map. Specifically, we evaluate two FOV evaluation metrics: one “baseline” method based on a threshold of intensity values in each FOV and the other based on the proposed auto-phase correlation index (APCI). While phase correlation is a well known measure of phase diversity, we show that APCI can be efficiently utilised as a metric to both delineate the specimen and highlight superior FOV focus candidates. The experimental results, on real-world cytology specimens, demonstrate that APCI is both effective and robust at specimen delineation, particularly in the presence of artifacts such as glue and dust. In addition, APCI is shown to be effective at selecting a subset of FOVs that can be correctly focused.
Keyword Virtual microscopy
Digital slides
Focus map
Scan map
Q-Index Code E1
Q-Index Status Confirmed Code
Institutional Status UQ

 
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Created: Sat, 07 Mar 2015, 16:15:36 EST by Andrew Bradley on behalf of School of Information Technol and Elec Engineering