Atomap: a new software tool for the automated analysis of atomic resolution images using two-dimensional Gaussian fitting.
Atomap: a new software tool for the automated analysis of atomic resolution images using two-dimensional Gaussian fitting.
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DOI：
10.1186/s40679-017-0042-5
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发表时间：
2017
影响因子：
--
通讯作者：
Holmestad R
中科院分区：
文献类型：
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作者：
Nord M;Vullum PE;MacLaren I;Tybell T;Holmestad R
具有原子分辨率的扫描透射电子显微镜（STEM）数据可以包含有关晶体材料结构的大量信息。通常，由于大量的原子柱和由不同元素组成的子晶格的强度差异很大，这些信息很难提取。在这项工作中，我们提出了一个免费的开源软件工具，用于分析STEM图像中原子柱的位置和形状，使用2-D椭圆高斯分布。该软件在钙钛矿氧化物结构的变体上进行测试。通过首先拟合最强的原子柱，然后减去它们，可以获得所有投影子晶格的信息。由此，我们可以从钙钛矿氧化物异质结构的环形暗场图像中提取A-阳离子柱的晶格参数和形状的变化。使用环形亮场图像，在氧柱位置的位移也被量化在相同的异质结构。在使用标准采集采集的STEM数据与作为在使用非刚性配准之后平均的图像堆栈获得的STEM图像之间比较确定原子柱的位置的精度。
Scanning transmission electron microscopy (STEM) data with atomic resolution can contain a large amount of information about the structure of a crystalline material. Often, this information is hard to extract, due to the large number of atomic columns and large differences in intensity from sublattices consisting of different elements. In this work, we present a free and open source software tool for analysing both the position and shapes of atomic columns in STEM-images, using 2-D elliptical Gaussian distributions. The software is tested on variants of the perovskite oxide structure. By first fitting the most intense atomic columns and then subtracting them, information on all the projected sublattices can be obtained. From this, we can extract changes in the lattice parameters and shape of A-cation columns from annular dark field images of perovskite oxide heterostructures. Using annular bright field images, shifts in oxygen column positions are also quantified in the same heterostructure. The precision of determining the position of atomic columns is compared between STEM data acquired using standard acquisition, and STEM-images obtained as an image stack averaged after using non-rigid registration.