原创力文档applications of the pipeline environment for visual informatics and genomics computations视觉信息和应用程序的管道环境基因组学计算.pdfVIP
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applications of the pipeline environment for visual informatics and genomics computations视觉信息和应用程序的管道环境基因组学计算
Dinov et al. BMC Bioinformatics 2011, 12:304
/1471-2105/12/304
SOFTWARE Open Access
Applications of the pipeline environment for
visual informatics and genomics computations
1,2 2,3 2,3 1 1 1
Ivo D Dinov , Federica Torri , Fabio Macciardi , Petros Petrosyan , Zhizhong Liu , Alen Zamanyan ,
1,4 1 1 5 5 1
Paul Eggert , Jonathan Pierce , Alex Genco , James A Knowles , Andrew P Clark , John D Van Horn ,
Joseph Ames2, Carl Kesselman2 and Arthur W Toga1,2*
Abstract
Background: Contemporary informatics and genomics research require efficient, flexible and robust management
of large heterogeneous data, advanced computational tools, powerful visualization, reliable hardware infrastructure,
interoperability of computational resources, and detailed data and analysis-protocol provenance. The Pipeline is a
client-server distributed computational environment that facilitates the visual graphical construction, execution,
monitoring, validation and dissemination of advanced data analysis protocols.
Results: This paper reports on the applications of the LONI Pipeline environment to address two informatics
challenges - graphical management of diverse genomics tools, and the interoperability of informatics software.
Specifically, this manuscript presents the concrete details of deploying general informatics suites and individual
software tools to new hardware infrastructures, the design, validation and execution of new visual analysis
protocols via the Pipeline graphical interface, and integration of diverse informatics tools via the Pipeline eXtensible
Markup Language syntax. We demons
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