PUBLICATION
Fast Post-Processing Pipeline for Optical Projection Tomography
- Authors
- Tang, X., van der Zwaan, D.M., Zammit, A., Rietveld, K.F.D., Verbeek, F.J.
- ID
- ZDB-PUB-180309-9
- Date
- 2017
- Source
- IEEE Transactions on Nanobioscience 16: 367-374 (Journal)
- Registered Authors
- Verbeek, Fons J.
- Keywords
- none
- MeSH Terms
-
- Algorithms
- Animals
- Artifacts
- Chickens
- Embryo, Nonmammalian/diagnostic imaging
- Heart/diagnostic imaging
- Imaging, Three-Dimensional/methods*
- Molecular Imaging
- Tomography, Optical/methods*
- Zebrafish
- PubMed
- 28541218 Full text @ IEEE Trans. Nanobioscience
Citation
Tang, X., van der Zwaan, D.M., Zammit, A., Rietveld, K.F.D., Verbeek, F.J. (2017) Fast Post-Processing Pipeline for Optical Projection Tomography. IEEE Transactions on Nanobioscience. 16:367-374.
Abstract
To improve the effectiveness and efficiency of optical projection tomography (OPT) 3-D reconstruction, we present a fast post-processing pipeline, including cropping, background subtraction, center of rotation (COR) correction, and 3-D reconstruction. Regarding to the COR correction, a novel algorithm based on interest point detection of sinogram is proposed by considering the principle of OPT imaging. Instead of locating the COR on single sinogram, we select equally spaced sinograms in the detected full range of specimen to make the located COR more convincing. The presented post-processing pipeline is implemented in a parallel manner and the experiments show that the average runtime for each image of size 1036 ×1360 ×400 pixels is less than 1 min. To quantify and compare the reconstructed results of different COR correction approaches, the coefficient of variation instead of variance is employed. The results indicate that the proposed COR correction outperforms the three traditional COR alignment approaches in terms of effectiveness and computational complexity.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping