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
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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DOI：
10.1002/jemt.23011
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发表时间：
2018-06-01
影响因子：
2.5
通讯作者：
Tonar, Zbynek
中科院分区：
文献类型：
--
作者：
Jirik, Miroslav;Bartos, Martin;Tonar, Zbynek
由于生物材料的低对比度和重叠的射线不透性，使用微CT对生物材料的结构和组成进行定量需要图像分割。分割程序引入的偏差量通常是未知的。我们的目标是开发软件，生成三维模型的纤维和多孔结构与已知的体积，表面，长度和对象计数的纤维材料，并提供一个软件工具，校准定量micro-CT评估。使用新开发的软件TeIGen生成虚拟图像堆栈，从而能够模拟未连接管、连接管和孔隙的微CT扫描。一个现实的噪音发生器被纳入。使用micro-CT评估了40个图像堆栈，并量化了真实已知数据和估计数据之间的误差。从几何图元开始，消除了表面和体积的数值估计误差，从而能够量化碰撞物体的体积和表面。阈值化对生成的测试图像集的参数的敏感性的分析揭示了分辨率降低和噪声增加对微CT量化的准确性的影响。当体素尺寸超过典型物体尺寸的1/10时，误差的大小随着分辨率的降低而增加，这模拟了仍然可以可靠量化的最小细节的影响。通过生成和保存具有已知形态测量数据的虚拟生成的图像数据集，用于校准定量微CT评估的开源软件免费提供给参与微CT扫描中三维纤维和多孔结构形态测量的研究人员。
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.