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Generating standardized image data for testing and calibrating quantification of volumes, surfaces, lengths, and object counts in fibrous and porous materials using X-ray microtomography
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SYSNO ASEP 0497407 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Generating standardized image data for testing and calibrating quantification of volumes, surfaces, lengths, and object counts in fibrous and porous materials using X-ray microtomography Author(s) Jiřík, M. (CZ)
Bartoš, M. (CZ)
Tomášek, P. (CZ)
Malečková, A. (CZ)
Kural, T. (CZ)
Horáková, J. (CZ)
Lukáš, D. (CZ)
Suchý, Tomáš (USMH-B) RID, ORCID, SAI
Kochová, P. (CZ)
Hubálek Kalbáčová, M. (CZ)
Králíčková, M. (CZ)
Tonar, Z. (CZ)Source Title Microscopy Research and Technique - ISSN 1059-910X
Roč. 81, č. 6 (2018), s. 551-568Number of pages 18 s. Publication form Print - P Language eng - English Country US - United States Keywords fibers ; Python ; pores ; scaffolds ; spatial statistics ; stereology ; textile Subject RIV JC - Computer Hardware ; Software OECD category Computer hardware and architecture R&D Projects NV15-25813A GA MZd - Ministry of Health (MZ) Institutional support USMH-B - RVO:67985891 UT WOS 000434151700004 EID SCOPUS 85042388467 DOI 10.1002/jemt.23011 Annotation Quantification of the structure and composition of biomaterials using micro-CT requires image segmentation due to the low contrast and overlapping radioopacity of biological materials. The amount of bias introduced by segmentation procedures is generally unknown. We aim to develop software that generates three-dimensional models of fibrous and porous structures with known volumes, surfaces, lengths, and object counts in fibrous materials and to provide a software tool that calibrates quantitative micro-CT assessments. Virtual image stacks were generated using the newly developed software TeIGen, enabling the simulation of micro-CT scans of unconnected tubes, connected tubes, and porosities. A realistic noise generator was incorporated. Forty image stacks were evaluated using micro-CT, and the error between the true known and estimated data was quantified. Starting with geometric primitives, the error of the numerical estimation of surfaces and volumes was eliminated, thereby enabling the quantification of volumes and surfaces of colliding objects. Analysis of the sensitivity of the thresholding upon parameters of generated testing image sets revealed the effects of decreasing resolution and increasing noise on the accuracy of the micro-CT quantification. The size of the error increased with decreasing resolution when the voxel size exceeded 1/10 of the typical object size, which simulated the effect of the smallest details that could still be reliably quantified. Open-source software for calibrating quantitative micro-CT assessments by producing and saving virtually generated image data sets with known morphometric data was made freely available to researchers involved in morphometry of three-dimensional fibrillar and porous structures in micro-CT scans. Workplace Institute of Rock Structure and Mechanics Contact Iva Švihálková, svihalkova@irsm.cas.cz, Tel.: 266 009 216 Year of Publishing 2019
Number of the records: 1