Last Mart G F, Abendstein Leoni, Voortman Lenard M, Sharp Thomas H
Department of Cell and Chemical Biology, Leiden University Medical Center, Leiden, Netherlands.
Institute of Science and Technology Austria (ISTA), Klosterneuburg, Austria.
Elife. 2024 Dec 20;13:RP98552. doi: 10.7554/eLife.98552.
Segmentation is a critical data processing step in many applications of cryo-electron tomography. Downstream analyses, such as subtomogram averaging, are often based on segmentation results, and are thus critically dependent on the availability of open-source software for accurate as well as high-throughput tomogram segmentation. There is a need for more user-friendly, flexible, and comprehensive segmentation software that offers an insightful overview of all steps involved in preparing automated segmentations. Here, we present Ais: a dedicated tomogram segmentation package that is geared towards both high performance and accessibility, available on GitHub. In this report, we demonstrate two common processing steps that can be greatly accelerated with Ais: particle picking for subtomogram averaging, and generating many-feature segmentations of cellular architecture based on in situ tomography data. Featuring comprehensive annotation, segmentation, and rendering functionality, as well as an open repository for trained models at aiscryoet.org, we hope that Ais will help accelerate research and dissemination of data involving cryoET.
分割是冷冻电子断层扫描许多应用中的关键数据处理步骤。诸如亚断层平均等下游分析通常基于分割结果，因此严重依赖于用于准确且高通量断层扫描分割的开源软件。需要更用户友好、灵活且全面的分割软件，该软件能深入洞察自动分割所涉及的所有步骤。在此，我们展示Ais：一个专门的断层扫描分割软件包，它兼具高性能和易访问性，可在GitHub上获取。在本报告中，我们展示了两个可通过Ais大幅加速的常见处理步骤：用于亚断层平均的粒子挑选，以及基于原位断层扫描数据生成细胞结构的多特征分割。Ais具有全面的注释、分割和渲染功能，以及在aiscryoet.org上的训练模型开放存储库，我们希望Ais将有助于加速涉及冷冻电子断层扫描的数据研究和传播。
