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Title: About a method for compressing X-ray computed microtomography data

Abstract

The management of scientific data is of high importance especially for experimental techniques that produce big data volumes. Such a technique is x-ray computed tomography (CT) and its community has introduced advanced data formats which allow for better management of experimental data. Rather than the organization of the data and the associated meta-data, the main topic on this work is data compression and its applicability to experimental data collected from a synchrotron-based CT beamline at the Elettra-Sincrotrone Trieste facility (Italy) and studies images acquired from various types of samples. This study covers parallel beam geometry, but it could be easily extended to a cone-beam one. The reconstruction workflow used is the one currently in operation at the beamline. Contrary to standard image compression studies, this manuscript proposes a systematic framework and workflow for the critical examination of different compression techniques and does so by applying it to experimental data. Beyond the methodology framework, this study presents and examines the use of JPEG-XR in combination with HDF5 and TIFF formats providing insights and strategies on data compression and image quality issues that can be used and implemented at other synchrotron facilities and laboratory systems. In conclusion, projection data compression using JPEG-XRmore » appears as a promising, efficient method to reduce data file size and thus to facilitate data handling and image reconstruction« less

Authors:
; ; ; ;
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States)
Sponsoring Org.:
Slovenia Ministry of Education Science and Sport; USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22)
OSTI Identifier:
1573244
DOE Contract Number:  
AC02-06CH11357
Resource Type:
Journal Article
Journal Name:
Measurement Science and Technology
Additional Journal Information:
Journal Volume: 29; Journal Issue: 4
Country of Publication:
United States
Language:
English
Subject:
data compression; tomographic data analyis; x-ray tomography

Citation Formats

Mancini, Lucia, Kourousias, George, Bille, Fulvio, De Carlo, Francesco, and Fidler, Ales. About a method for compressing X-ray computed microtomography data. United States: N. p., 2018. Web. doi:10.1088/1361-6501/aaa0fa.
Mancini, Lucia, Kourousias, George, Bille, Fulvio, De Carlo, Francesco, & Fidler, Ales. About a method for compressing X-ray computed microtomography data. United States. doi:10.1088/1361-6501/aaa0fa.
Mancini, Lucia, Kourousias, George, Bille, Fulvio, De Carlo, Francesco, and Fidler, Ales. Sun . "About a method for compressing X-ray computed microtomography data". United States. doi:10.1088/1361-6501/aaa0fa.
@article{osti_1573244,
title = {About a method for compressing X-ray computed microtomography data},
author = {Mancini, Lucia and Kourousias, George and Bille, Fulvio and De Carlo, Francesco and Fidler, Ales},
abstractNote = {The management of scientific data is of high importance especially for experimental techniques that produce big data volumes. Such a technique is x-ray computed tomography (CT) and its community has introduced advanced data formats which allow for better management of experimental data. Rather than the organization of the data and the associated meta-data, the main topic on this work is data compression and its applicability to experimental data collected from a synchrotron-based CT beamline at the Elettra-Sincrotrone Trieste facility (Italy) and studies images acquired from various types of samples. This study covers parallel beam geometry, but it could be easily extended to a cone-beam one. The reconstruction workflow used is the one currently in operation at the beamline. Contrary to standard image compression studies, this manuscript proposes a systematic framework and workflow for the critical examination of different compression techniques and does so by applying it to experimental data. Beyond the methodology framework, this study presents and examines the use of JPEG-XR in combination with HDF5 and TIFF formats providing insights and strategies on data compression and image quality issues that can be used and implemented at other synchrotron facilities and laboratory systems. In conclusion, projection data compression using JPEG-XR appears as a promising, efficient method to reduce data file size and thus to facilitate data handling and image reconstruction},
doi = {10.1088/1361-6501/aaa0fa},
journal = {Measurement Science and Technology},
number = 4,
volume = 29,
place = {United States},
year = {2018},
month = {4}
}