Bisque: a platform for bioimage analysis and management
Bisque: a platform for bioimage analysis and management
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DOI：
10.1093/bioinformatics/btp699
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发表时间：
2010-02-15
期刊：
影响因子：
5.8
通讯作者：
Manjunath, B. S.
中科院分区：
文献类型：
--
作者：
Kvilekval, Kristian;Fedorov, Dmitry;Manjunath, B. S.
动机：显微镜领域的进步带来了对更好的图像管理和分析解决方案的需求。新的成像技术产生了大量难以组织、搜索、处理和分析的图像及元数据。相互冲突的专有图像和元数据格式使这些任务更加复杂，阻碍了图像及任何相关数据的分析和共享。这些障碍导致研究资源被锁在数字媒体和文件柜中。当前的图像管理系统无法满足必须定期对图像数据进行量化的研究人员的迫切需求。
结果：我们推出了Bisque，这是一个基于网络的平台，专门为研究人员提供用于5D图像数据的组织和定量分析工具。用户可以通过数据模型和分析扩展来扩展Bisque，以便使系统适应当地需求。Bisque的可扩展性源于两个核心概念：灵活的元数据设施和开放的基于网络的架构。这些共同使研究人员能够创建、开发和共享新的生物图像分析。文中介绍了几个使用Bisque进行特定应用的案例研究，以表明用户如何根据自身目的扩展Bisque。
Motivation: Advances in the field of microscopy have brought about the need for better image management and analysis solutions. Novel imaging techniques have created vast stores of images and metadata that are difficult to organize, search, process and analyze. These tasks are further complicated by conflicting and proprietary image and metadata formats, that impede analyzing and sharing of images and any associated data. These obstacles have resulted in research resources being locked away in digital media and file cabinets. Current image management systems do not address the pressing needs of researchers who must quantify image data on a regular basis.Results: We present Bisque, a web-based platform specifically designed to provide researchers with organizational and quantitative analysis tools for 5D image data. Users can extend Bisque with both data model and analysis extensions in order to adapt the system to local needs. Bisque's extensibility stems from two core concepts: flexible metadata facility and an open web-based architecture. Together these empower researchers to create, develop and share novel bioimage analyses. Several case studies using Bisque with specific applications are presented as an indication of how users can expect to extend Bisque for their own purposes.