Using registries to integrate bioinformatics tools and services into workbench environments
Using registries to integrate bioinformatics tools and services into workbench environments
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DOI：
10.1007/s10009-015-0392-z
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发表时间：
2016-11-01
影响因子：
1.5
通讯作者：
Ison, Jon
中科院分区：
文献类型：
--
作者：
Menager, Herve;Kalas, Matus;Ison, Jon
生物信息学资源的多样性和复杂性对其本地化，部署和使用提出了重大挑战，需要可靠的系统来解决这些问题。与此同时，用户需要越来越多的可用和集成的方式来访问和分析数据，特别是在方便的集成“工作台”环境中。资源描述是注册表和工作台系统的核心元素，用于帮助用户查找和理解可用的软件工具、数据资源和Web服务，并将其本地化、执行和联合收割机组合。然而，描述是困难和昂贵的创建和维护，因为它们是不稳定的，需要详尽的知识所描述的资源，其适用性的生物研究，以及数据模型和语法用来描述它。我们在这里提出的生物信息学集成引擎，一个软件组件，将简化集成的生物信息学资源在工作台环境，使用现有的ELIXIR工具和数据服务注册表提供的描述。
The diversity and complexity of bioinformatics resources presents significant challenges to their localisation, deployment and use, creating a need for reliable systems that address these issues. Meanwhile, users demand increasingly usable and integrated ways to access and analyse data, especially within convenient, integrated "workbench" environments. Resource descriptions are the core element of registry and workbench systems, which are used to both help the user find and comprehend available software tools, data resources, and Web Services, and to localise, execute and combine them. The descriptions are, however, hard and expensive to create and maintain, because they are volatile and require an exhaustive knowledge of the described resource, its applicability to biological research, and the data model and syntax used to describe it. We present here the Workbench Integration Enabler, a software component that will ease the integration of bioinformatics resources in a workbench environment, using their description provided by the existing ELIXIR Tools and Data Services Registry.