ARTICLE
liu_OPTICA_2022/IDIAP
Mechanical Artifacts in Optical Projection Tomography: Classification and Automatic Calibration
Liu, Yan
Dong, Jonathan
Pham, Thanh-An
Marelli, François
Unser, Michael
Image quality
Image registration
Reconstruction algorithms
Spatial resolution
Three dimensional imaging
X ray computed tomography
EXTERNAL
https://publications.idiap.ch/attachments/papers/2022/liu_OPTICA_2022.pdf
PUBLIC
Opt. Continuum
1
12
2577--2589
2022
10.1364/OPTCON.474540
doi
Optical projection tomography (OPT) is a powerful tool for biomedical studies. It achieves 3D visualization of mesoscopic biological samples with high spatial resolution using conventional tomographic-reconstruction algorithms. However, various artifacts degrade the quality of the reconstructed images due to experimental imperfections in the OPT instruments. While many efforts have been made to characterize and correct for these artifacts, they focus on one specific type of artifacts, whereas a comprehensive catalog of all sorts of mechanical artifacts does not currently exist. In this work, we systematically document many mechanical artifacts. We rely on a 3D description of the imaging system that uses a set of angular and translational parameters. We provide a catalog of artifacts. It lists their cause, resulting effects, and existing correction methods. Then, we introduce an automatic calibration algorithm that is able to recover the unknown system parameters fed into the final 3D iterative reconstruction algorithm for a distortion-free volumetric image. Simulations with beads data and experimental results on a fluorescent textile fiber confirm that our algorithm successfully removes miscalibration artifacts in the reconstruction.