Müller Oliver, Lipp Peter, Kaestner Lars
Institute for Molecular Cell Biology, Saarland University, Homburg, Germany.
BMC Res Notes. 2011 Oct 6;4:382. doi: 10.1186/1756-0500-4-382.
Modern microscope platforms are able to generate multiple gigabytes of image data in a single experimental session. In a routine research laboratory workflow, these data are initially stored on the local acquisition computer from which files need to be transferred to the experimenter's (remote) image repository (e.g., DVDs, portable hard discs or server-based storage) because of limited local data storage. Although manual solutions for this migration, such as OMERO - a client-server software for visualising and managing large amounts of image data - exist, this import process may be a time-consuming and tedious task.
We have developed ATOM, a Java-based and thus platform-independent add-on for OMERO enabling automated transfer of image data from a wide variety of acquisition software packages into OMERO. ATOM provides a graphical user interface and allows pre-organisation of experimental data for the transfer.
ATOM is a convenient extension of the OMERO software system. An automated interface to OMERO will be a useful tool for scientists working with file formats supported by the Bio-Formats file format library, a platform-independent library for reading the most common file formats of microscope images.
现代显微镜平台在单次实验过程中能够生成数GB的图像数据。在常规研究实验室工作流程中，由于本地数据存储有限，这些数据最初存储在本地采集计算机上，之后需要将文件传输到实验者的（远程）图像存储库（例如DVD、便携式硬盘或基于服务器的存储设备）。尽管存在手动迁移解决方案，例如OMERO（一款用于可视化和管理大量图像数据的客户端-服务器软件），但这种导入过程可能是一项耗时且繁琐的任务。
我们开发了ATOM，这是一个基于Java的、因此与平台无关的OMERO插件，可实现将来自各种采集软件包的图像数据自动传输到OMERO。ATOM提供图形用户界面，并允许对实验数据进行预组织以便传输。
ATOM是OMERO软件系统的便捷扩展。对于使用Bio-Formats文件格式库支持的文件格式的科学家来说，OMERO的自动化接口将是一个有用的工具，Bio-Formats文件格式库是一个与平台无关的库，用于读取显微镜图像最常见的文件格式。
