Open Source Microscopy Software

描述（由申请人提供）：自从17世纪列文虎克发明显微镜以来，显微镜一直是生物科学的基石技术。今天，数字显微镜正在彻底改变基础生命科学和临床研究。通过目镜直接观察正在变得不常见，并迅速被使用数码相机收集数据所取代。除了数码相机外，当代显微镜还有几个运动装置（百叶窗，电动状态，滤光轮或炮塔，z形驱动器等），其操作需要根据研究人员的实验需要进行编排。因此，显微镜图像采集的软件控制变得必不可少。有几个商业软件包可用，但它们都受到以下问题的困扰：1)它们可以控制的硬件的限制；2)不可能添加硬件支持来改变它们的硬连线实验策略；3)“黑匣子”综合症，即很难与其他软件和数据库一起工作的趋势；4)高成本。为了纠正这种情况，我们开发了控制显微镜图像采集的开源软件。该软件易于安装和操作，但可以扩展到任何级别。例如，终端用户可以添加硬件支持，并且可以使用内置脚本语言更改实验策略。用户界面是在实验室研究人员的广泛帮助下形成的。该软件支持多平台（Windows、Mac、Linux）维护。在这里，我们的目标是通过大幅增加支持的硬件数量和实现高速和多位置采集来扩展我们的初始软件。我们计划通过增加自动代码生成和加强现有脚本功能，使研究人员更容易更改软件。我们还建议增加驱动自动化、高通量显微镜所需的功能，并将软件与数据库和分析环境集成。通过这些和额外的改进，我们期望这个软件（免费提供）最终将在全球至少5000个显微镜工作站中使用。有了开源软件，研究人员也将能够更容易地执行创造性的、新颖的成像策略。这个项目将产生灵活的，可扩展的软件，研究人员将使用它来操作光学显微镜。该软件将免费提供，不仅使新的实验方法成为可能，而且使全世界的研究人员更容易获得数字显微镜。

DESCRIPTION (provided by applicant): Ever since the inception of the microscope by van Leeuwenhoek in the 17th century, microscopy has been the cornerstone technology of biological sciences. Today, digital microscopy is revolutionizing basic life science and clinical research. Direct observation through an eyepiece is becoming uncommon and is rapidly being replaced by data collection using digital cameras. In addition to a digital camera, contemporary microscopes have several motion devices (shutters, motorized states, filter wheels or turrets, z-drives, etc.) whose operation needs to be orchestrated according to the researcher's experimental needs. Thus, software control of microscope image acquisition has become indispensable. There are several commercial software packages available, but they suffer from 1) limitations in the hardware they can control, 2) impossibility of adding hardware support to change their hardwired experimental strategies, 3) the 'black box' syndrome, i.e. the tendency to make it difficult to work together with other software and databases, and 4) high cost. To remedy this situation, we have developed Open Source Software that controls microscope image acquisition. The software is easy to install and operate, yet can be extended at any level. For instance, hardware support can be added by the end-user and experimental strategies can be changed using a built-in scripting language. The user interface has been shaped with extensive help of researchers in the lab. The software is maintained on multiple platforms (Windows, Mac, Linux). Here, we aim to extend our initial software by greatly increasing the number of supported hardware and by enabling high speed and multi-position acquisition. We plan to make it easier for researchers to change the software by adding automatic code generation and strengthening the existing scripting facilities. We also propose adding features needed to drive automated, high -throughput microscopes and to integrate the software with databases and analysis environments. Through these and additional improvements, we expect that this software (provided free of charge) will ultimately be used in at least 5,000 microscope workstations worldwide. With Open Source software, researchers also will be able to more easily execute creative, novel imaging strategies. Narrative: This project will result in flexible, extendible software that researchers will use to operate light microscopes. The software will be freely available, and will not only make possible novel experimental approaches, but also make digital microscopy much more accessible to researchers world-wide.