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Focused ion beam milling and MicroED structure determination of metal-organic framework crystals 金属有机框架晶体的聚焦离子束铣削和 MicroED 结构测定
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-12-05 DOI: 10.1016/j.ultramic.2023.113905
Andrey A. Bardin , Alison Haymaker , Fateme Banihashemi , Jerry Y.S. Lin , Michael W. Martynowycz , Brent L. Nannenga

We report new advancements in the determination and high-resolution structural analysis of beam-sensitive metal organic frameworks (MOFs) using microcrystal electron diffraction (MicroED) coupled with focused ion beam milling at cryogenic temperatures (cryo-FIB). A microcrystal of the beam-sensitive MOF, ZIF-8, was ion-beam milled in a thin lamella approximately 150 nm thick. MicroED data were collected from this thin lamella using an energy filter and a direct electron detector operating in counting mode. Using this approach, we achieved a greatly improved resolution of 0.59 Å with a minimal total exposure of only 0.64 e/A2. These innovations not only improve model statistics but also further demonstrate that ion-beam milling is compatible with beam-sensitive materials, augmenting the capabilities of electron diffraction in MOF research.

我们报告了利用微晶体电子衍射(MicroED)结合低温下的聚焦离子束研磨(cryo-FIB)在测定和高分辨率结构分析对光束敏感的金属有机框架(MOFs)方面取得的新进展。对光束敏感的 MOF ZIF-8 的微晶被离子束研磨成厚度约为 150 nm 的薄片。使用能量滤波器和计数模式下的直接电子检测器从薄片上收集微电子能谱数据。通过这种方法,我们的分辨率大大提高,达到了 0.59 Å,而总曝光量仅为 0.64 e-/A2。这些创新不仅改善了模型统计,还进一步证明了离子束铣削与光束敏感材料的兼容性,增强了电子衍射在 MOF 研究中的能力。
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引用次数: 0
“Depo-all-around”: A novel FIB-based TEM specimen preparation technique for solid state battery composites and other loosely bound samples “depo -全能”:一种新的基于fib的固体电池复合材料和其他松散结合样品的TEM样品制备技术
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-12-05 DOI: 10.1016/j.ultramic.2023.113904
Thomas Demuth , Till Fuchs , Andreas Beyer , Jürgen Janek , Kerstin Volz

Interfacial phenomena between active cathode materials and solid electrolytes play an important role in the function of solid-state batteries. (S)TEM imaging can give valuable insight into the atomic structure and composition at the various interfaces, yet the preparation of TEM specimen by FIB (focused ion beam) is challenging for loosely bound samples like composites, as they easily break apart during conventional preparation routines. We propose a novel preparation method that uses a frame made of deposition layers from the FIB's gas injection system to prevent the sample from breaking apart. This technique can of course be also applied to other loosely bound samples, not only those in the field of batteries.

活性正极材料与固体电解质之间的界面现象对固态电池的性能起着重要的作用。(S)透射电镜成像可以对不同界面的原子结构和组成提供有价值的见解,然而,通过FIB(聚焦离子束)制备TEM样品对于像复合材料这样松散结合的样品是具有挑战性的,因为它们在常规制备过程中很容易破裂。我们提出了一种新的制备方法,利用FIB气体喷射系统的沉积层制成框架,以防止样品破裂。这种技术当然也可以应用于其他松散结合的样品,而不仅仅是电池领域的样品。
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引用次数: 0
Time calibration studies for the Timepix3 hybrid pixel detector in electron microscopy 电子显微镜中 Timepix3 混合像素探测器的时间校准研究
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-12-02 DOI: 10.1016/j.ultramic.2023.113889
Yves Auad, Jassem Baaboura, Jean-Denis Blazit, Marcel Tencé, Odile Stéphan, Mathieu Kociak, Luiz H.G. Tizei

Direct electron detection is currently revolutionizing many fields of electron microscopy due to its lower noise, its reduced point-spread function, and its increased quantum efficiency. More specifically to this work, Timepix3 is a hybrid-pixel direct electron detector capable of outputting temporal information of individual hits in its pixel array. Its architecture results in a data-driven detector, also called event-based, in which individual hits trigger the data off the chip for readout as fast as possible. The presence of a pixel threshold value results in an almost readout-noise-free detector while also defining the hit time of arrival and the time the signal stays over the pixel threshold. In this work, we have performed various experiments to calibrate and correct the Timepix3 temporal information, specifically in the context of electron microscopy. These include the energy calibration, and the time-walk and pixel delay corrections, reaching an average temporal resolution throughout the entire pixel matrix of 1.37±0.04ns. Additionally, we have also studied cosmic rays tracks to characterize the charge dynamics along the volume of the sensor layer, allowing us to estimate the limits of the detector’s temporal response depending on different bias voltages, sensor thickness, and the electron beam ionization volume. We have estimated the uncertainty due to the ionization volume ranging from about 0.8 ns for 60 keV electrons to 8.8 ns for 300 keV electrons.

由于直接电子探测具有噪声低、点扩散函数小和量子效率高等优点,目前正在电子显微镜的许多领域掀起一场革命。更具体到这项工作,Timepix3 是一种混合像素直接电子探测器,能够输出其像素阵列中单个命中点的时间信息。它的结构形成了一种数据驱动型探测器,也称为基于事件的探测器,在这种结构中,单个撞击会触发数据尽快从芯片中读出。像素阈值的存在使检测器几乎不产生读出噪声,同时还定义了命中到达时间和信号在像素阈值上的停留时间。在这项工作中,我们进行了各种实验来校准和修正 Timepix3 的时间信息,特别是在电子显微镜方面。其中包括能量校准、时间漫步和像素延迟校正,整个像素矩阵的平均时间分辨率为 1.37±0.04ns。此外,我们还对宇宙射线轨迹进行了研究,以确定沿传感器层体积的电荷动态特性,从而根据不同的偏置电压、传感器厚度和电子束电离体积,估算出探测器的时间响应极限。我们估计电离体积造成的不确定性从 60 keV 电子的约 0.8 ns 到 300 keV 电子的 8.8 ns 不等。
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引用次数: 0
Segmentability evaluation of back-scattered SEM images of multiphase materials 多相材料背散射扫描电镜图像的可分割性评价
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-24 DOI: 10.1016/j.ultramic.2023.113892
Manolis Chatzigeorgiou , Vassilios Constantoudis , Marios Katsiotis , Margarita Beazi-Katsioti , Nikos Boukos

Segmentation methods are very useful tools in the Electron Microscopy inspection of materials, enabling the extraction of quantitative results from microscopy images. Back-Scattered Electron (BSE) images carry information of the mean atomic number in the interaction volume and hence can be used to quantify the phase composition in multiphase materials. Since phase composition and proportion affects the material properties and hence its applications, the segmentation accuracy of such images rendered of critical importance for material science. In this work, the notion of segmentability for BSE images is proposed to define the ability of an image to be segmented accurately. This notion can be used to guide the image acquisition process so that segmentability is maximized and segmentation accuracy is ensured. An index is devised to quantify segmentability based on a combination of the modified Fisher Discrimination Ratio and of the second Minkowski functional capturing intensity and spatial aspects of BSE images respectively. The suggested Segmentability Index (SI) is validated in synthetic BSE images which are generated with a novel algorithm allowing the independent control of spatial distribution of phases and their grayscale intensity histograms. Additionally, SI is applied in real-synthetic BSE images, where the real greyscale distributions of Ordinary Portland Cement (OPC) clinker crystallographic phases are used, to demonstrate the ability of SI to indicate the optimum choice of critical image acquisition settings leading to the more accurate segmentation output.

在材料的电子显微镜检测中,分割方法是非常有用的工具,可以从显微镜图像中提取定量结果。背散射电子(BSE)图像携带相互作用体积中平均原子序数的信息,因此可以用来量化多相材料的相组成。由于相组成和比例影响着材料的性能和应用,因此这类图像的分割精度对材料科学至关重要。在这项工作中,提出了疯牛病图像的可分割性的概念,以定义图像被准确分割的能力。这个概念可以用来指导图像采集过程,以最大限度地提高可分割性和确保分割精度。基于改进的Fisher判别比和第二闵可夫斯基函数捕获强度和空间方面,设计了一种量化疯牛病图像可分割性的指标。本文提出的可分割性指数(SI)在合成疯牛病图像中得到了验证,该图像是由一种新的算法生成的,该算法允许独立控制相位的空间分布及其灰度强度直方图。此外,SI应用于真实合成的BSE图像,其中使用了普通硅酸盐水泥(OPC)熟料晶体相的真实灰度分布,以证明SI能够指示关键图像采集设置的最佳选择,从而获得更准确的分割输出。
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引用次数: 0
Correlating electrochemical stimulus to structural change in liquid electron microscopy videos using the structural dissimilarity metric 利用结构差异度量将电化学刺激与液体电子显微镜视频中的结构变化联系起来
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-24 DOI: 10.1016/j.ultramic.2023.113894
Justin T. Mulvey , Katen P. Iyer , Tomàs Ortega , Jovany G. Merham , Yevheniy Pivak , Hongyu Sun , Allon I. Hochbaum , Joseph P. Patterson

In-situ liquid cell transmission electron microscopy (LCTEM) with electrical biasing capabilities has emerged as an invaluable tool for directly imaging electrode processes with high temporal and spatial resolution. However, accurately quantifying structural changes that occur on the electrode and subsequently correlating them to the applied stimulus remains challenging. Here, we present structural dissimilarity (DSSIM) analysis as segmentation-free video processing algorithm for locally detecting and quantifying structural change occurring in LCTEM videos. In this study, DSSIM analysis is applied to two in-situ LCTEM videos to demonstrate how to implement this algorithm and interpret the results. We show DSSIM analysis can be used as a visualization tool for qualitative data analysis by highlighting structural changes which are easily missed when viewing the raw data. Furthermore, we demonstrate how DSSIM analysis can serve as a quantitative metric and efficiently convert 3-dimensional microscopy videos to 1-dimenional plots which makes it easy to interpret and compare events occurring at different timepoints in a video. In the analyses presented here, DSSIM is used to directly correlate the magnitude and temporal scale of structural change to the features of the applied electrical bias. ImageJ, Python, and MATLAB programs, including a user-friendly interface and accompanying documentation, are published alongside this manuscript to make DSSIM analysis easily accessible to the scientific community.

具有电偏压功能的原位液胞透射电子显微镜(LCTEM)已成为直接对电极过程进行高时空分辨率成像的宝贵工具。然而,准确量化电极上发生的结构变化并将其与施加的刺激相关联仍然是一项挑战。在此,我们提出了结构不相似性(DSSIM)分析作为一种免分割视频处理算法,用于局部检测和量化 LCTEM 视频中发生的结构变化。本研究将 DSSIM 分析应用于两段现场 LCTEM 视频,以演示如何实施该算法并解释结果。我们展示了 DSSIM 分析可用作定性数据分析的可视化工具,通过突出显示在查看原始数据时容易忽略的结构变化。此外,我们还展示了 DSSIM 分析如何作为一种定量指标,有效地将三维显微镜视频转换为一维区域图,从而轻松解释和比较视频中不同时间点发生的事件。在本文介绍的分析中,DSSIM 用于将结构变化的幅度和时间范围与施加的电偏压特征直接关联起来。ImageJ、Python 和 MATLAB 程序,包括友好的用户界面和随附文档,与本手稿一同发布,使科学界能轻松获得 DSSIM 分析结果。
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引用次数: 0
Noise-dependent bias in quantitative STEM-EMCD experiments revealed by bootstrapping 通过自举揭示定量STEM-EMCD实验中的噪声依赖偏差
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-24 DOI: 10.1016/j.ultramic.2023.113891
Hasan Ali , Jan Rusz , Daniel E. Bürgler , Roman Adam , Claus M. Schneider , Cheuk-Wai Tai , Thomas Thersleff

Electron magnetic circular dichroism (EMCD) is a powerful technique for estimating element-specific magnetic moments of materials on nanoscale with the potential to reach atomic resolution in transmission electron microscopes. However, the fundamentally weak EMCD signal strength complicates quantification of magnetic moments, as this requires very high precision, especially in the denominator of the sum rules. Here, we employ a statistical resampling technique known as bootstrapping to an experimental EMCD dataset to produce an empirical estimate of the noise-dependent error distribution resulting from application of EMCD sum rules to bcc iron in a 3-beam orientation. We observe clear experimental evidence that noisy EMCD signals preferentially bias the estimation of magnetic moments, further supporting this with error distributions produced by Monte-Carlo simulations. Finally, we propose guidelines for the recognition and minimization of this bias in the estimation of magnetic moments.

电子磁性圆二色性(EMCD)是一种在纳米尺度上估计材料元素特有磁矩的有力技术,有可能在透射电子显微镜下达到原子分辨率。然而,微弱的EMCD信号强度使磁矩的量化复杂化,因为这需要非常高的精度,特别是在求和规则的分母中。在这里,我们采用了一种称为自举的统计重采样技术,用于实验EMCD数据集,以产生噪声相关误差分布的经验估计,这些误差分布是由EMCD求和规则应用于三波束方向的bcc铁产生的。我们观察到明确的实验证据,噪声EMCD信号优先偏向磁矩的估计,进一步支持这与蒙特卡罗模拟产生的误差分布。最后,我们提出了在磁矩估计中识别和最小化这种偏差的准则。
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引用次数: 0
Weighted Burgers Vector analysis of orientation fields from high-angular resolution electron backscatter diffraction 来自高角分辨率电子反向散射衍射的定向场的加权布尔格斯矢量分析
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-24 DOI: 10.1016/j.ultramic.2023.113893
Joe Gardner , David Wallis , Lars N. Hansen , John Wheeler

The Weighted Burgers Vector (WBV) method can extract information about dislocation types and densities present in distorted crystalline materials from electron backscatter diffraction (EBSD) maps, using no assumptions about which slip systems might be present. Furthermore, high-angular resolution EBSD (HR-EBSD) uses a cross-correlation procedure to increase the angular precision of EBSD measurements by an order of magnitude compared to conventional EBSD. However, the WBV technique has not previously been applied to HR-EBSD data and therefore it remains unclear as to which low-angle substructures can be reliably characterised by WBV analysis of conventional EBSD data and which require additional HR-EBSD processing. To establish some practical examples that can be used to guide future data-acquisition strategies, we compare the output of the WBV method when applied to conventional EBSD data and HR-EBSD data collected from the most common minerals in Earth's lower crust (plagioclase feldspar) and upper mantle (olivine). The results demonstrate that HR-EBSD and WBV processing are complementary techniques. The increase in angular precision achieved with HR-EBSD processing allows low-angle (on the order of 0.1°) structures, which are obscured by noise in conventional EBSD data, to be analyzed quantitatively using the WBV method. Combining the WBV and HR-EBSD methods increases the precision of calculated WBV directions, which is essential when using information about active slip systems to infer likely deformation mechanisms from naturally deformed microstructures. This increase in precision is particularly important for low-symmetry crystals, such as plagioclase, that have a wide range of available slip systems that vary in relative activity with changing pressure, temperature and differential stress. Because WBV directions are calculated using no assumptions about which slip systems may be present, combining this technique with HR-EBSD to refine the precision of lattice orientation gradients is ideal for investigating complex natural materials with unknown deformation histories.

加权布尔格斯矢量(WBV)方法可以从电子反向散射衍射(EBSD)图中提取扭曲晶体材料中存在的位错类型和密度信息,而无需假设可能存在的滑移系统。此外,高角分辨率 EBSD(HR-EBSD)使用交叉相关程序将 EBSD 测量的角度精度比传统 EBSD 提高了一个数量级。然而,WBV 技术之前尚未应用于 HR-EBSD 数据,因此,哪些低角度亚结构可以通过对传统 EBSD 数据的 WBV 分析进行可靠表征,哪些需要额外的 HR-EBSD 处理,目前仍不清楚。为了建立一些可用于指导未来数据采集策略的实际例子,我们比较了 WBV 方法应用于常规 EBSD 数据和从地壳下部(斜长石)和地幔上部(橄榄石)最常见矿物采集的 HR-EBSD 数据时的输出结果。结果表明,HR-EBSD 和 WBV 处理是互补的技术。通过 HR-EBSD 处理实现的角度精度的提高,使得在传统 EBSD 数据中被噪声掩盖的低角度(约 0.1°)结构可以通过 WBV 方法进行定量分析。结合 WBV 和 HR-EBSD 方法可以提高计算 WBV 方向的精度,这对于利用活动滑移系统信息推断自然变形微结构的可能变形机制至关重要。精度的提高对于低对称性晶体(如斜长石)尤为重要,因为这种晶体有多种可用的滑移系统,其相对活性随压力、温度和应力差的变化而变化。由于在计算 WBV 方向时不需要假设可能存在哪些滑移系统,因此将该技术与 HR-EBSD 结合使用以提高晶格取向梯度的精度,是研究具有未知变形历史的复杂天然材料的理想方法。
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引用次数: 0
Preface to the twelfth international workshop on low energy microscopy and photoemission electron microscopy (LEEM/PEEM 12) 第十二届国际低能显微镜与光电电子显微镜研讨会(LEEM/PEEM 12)前言
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-18 DOI: 10.1016/j.ultramic.2023.113887
Michael Foerster , Juan de la Figuera , Irene Palacio , Lucia Aballe
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引用次数: 0
Accurate magnification determination for cryoEM using gold 用金测定冷冻电镜的精确放大倍率
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-15 DOI: 10.1016/j.ultramic.2023.113883
Joshua L. Dickerson, Erin Leahy, Mathew J. Peet, Katerina Naydenova, Christopher J. Russo

Determining the correct magnified pixel size of single-particle cryoEM micrographs is necessary to maximize resolution and enable accurate model building. Here we describe a simple and rapid procedure for determining the absolute magnification in an electron cryomicroscope to a precision of <0.5%. We show how to use the atomic lattice spacings of crystals of thin and readily available test specimens, such as gold, as an absolute reference to determine magnification for both room temperature and cryogenic imaging. We compare this method to other commonly used methods, and show that it provides comparable accuracy in spite of its simplicity. This magnification calibration method provides a definitive reference quantity for data analysis and processing, simplifies the combination of multiple datasets from different microscopes and detectors, and improves the accuracy with which the contrast transfer function of the microscope can be determined. We also provide an open source program, magCalEM, which can be used to accurately estimate the magnified pixel size of a cryoEM dataset ex post facto.

确定正确的放大像素大小的单粒子低温显微镜是必要的,以最大限度地提高分辨率,使准确的模型建设。在这里,我们描述了一种简单而快速的程序,用于确定电子冷冻显微镜的绝对放大倍率,其精度为0.5%。我们展示了如何使用薄晶体的原子晶格间距和容易获得的测试样品,如金,作为确定室温和低温成像放大倍率的绝对参考。我们将这种方法与其他常用的方法进行比较,并表明,尽管它简单,但它提供了相当的准确性。该方法为数据分析和处理提供了明确的参考量,简化了不同显微镜和检测器的多组数据集的组合,提高了确定显微镜对比度传递函数的准确性。我们还提供了一个开源程序magCalEM,它可以用来准确地估计冷冻em数据集的放大像素大小。
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引用次数: 0
Interfacial excess of solutes across phase boundaries using atom probe microscopy 用原子探针显微镜观察溶质越过相界的界面过量
IF 2.2 3区 工程技术 Q1 Physics and Astronomy Pub Date : 2023-11-11 DOI: 10.1016/j.ultramic.2023.113885
F. Theska, S. Primig

Three-dimensional elemental mapping in atom probe microscopy provides invaluable insights into the structure and composition of interfaces in materials. Quasi-atomic resolution facilitates access to the solute decoration of grain boundaries, advancing the knowledge on local segregation and depletion phenomena. More recent developments unlocked three-dimensional mapping of the interfacial excess across grain boundaries. Such detailed understanding of the local structure and composition of these interfaces enabled advancements in processing methods and material development. However, many engineering alloys, such as Ni-based superalloys, have much more complex microstructures with various solutes and precipitates in close proximity to grain boundaries. The complex interaction of grain boundary segregation and grain boundary precipitates requires precise compositional control. However, abrupt changes in solute solubility across phase boundaries obscure the interfacial excess in proximity to grain boundaries.

Therefore, this study provides a methodological framework of the quantitative characterization of phase boundaries in proximity to grain boundaries using atom probe microscopy. The detailed mass spectrum ranging of MC, M23C6, and M6C carbides is explored in order to achieve satisfactory compositional information. Proximity histograms and correlating concentration difference profiles determine the interface location, where a Gibbs dividing surface is not accessible. This enables reliable direct calculation of the interfacial excess across phase boundaries. Intuitively interpretable and quantitative ‘interface plots’ are introduced, and showcased for phase boundaries between γ-matrix, γ' precipitates, GB-γ', MC, M23C6, and M6C carbides. The presented framework advances access to the local composition in proximity to grain boundaries and may be applicable to other engineering alloys or materials with functional properties.

原子探针显微镜中的三维元素映射为材料界面的结构和组成提供了宝贵的见解。准原子分辨率有助于研究晶界的溶质修饰,促进对局部偏析和耗竭现象的认识。最近的发展揭示了跨晶界界面过剩的三维映射。对这些界面的局部结构和组成的详细了解使加工方法和材料开发取得了进步。然而,许多工程合金,如镍基高温合金,具有更复杂的显微组织,在靠近晶界的地方有各种溶质和析出物。晶界偏析和晶界沉淀的复杂相互作用需要精确的成分控制。然而,溶质溶解度在相界上的突然变化掩盖了晶界附近的界面过剩。因此,本研究提供了一个使用原子探针显微镜对晶界附近相界进行定量表征的方法学框架。探讨了MC、M23C6和M6C碳化物的详细质谱范围,以获得满意的成分信息。邻近直方图和相关的浓度差曲线确定了界面位置,其中吉布斯划分面是不可接近的。这样可以可靠地直接计算跨相界的界面过剩。引入了直观的可解释和定量的“界面图”,并展示了γ-基体,γ'沉淀,GB-γ', MC, M23C6和M6C碳化物之间的相界。所提出的框架促进了接近晶界的局部成分的获取,并可适用于其他具有功能特性的工程合金或材料。
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引用次数: 0
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Ultramicroscopy
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