iRODS metadata management for a cancer genome analysis workflow

BMC Bioinformatics

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[1] 0000 0000 8580 3777, grid.6190.e, Department of Translational Genomics, Center of Integrated Oncology Cologne-Bonn, Medical Faculty, University of Cologne, 50931, Cologne, Germany;0000 0000 8580 3777, grid.6190.e, Department of Translational Genomics, Center of Integrated Oncology Cologne-Bonn, Medical Faculty, University of Cologne, 50931, Cologne, Germany;0000 0000 8580 3777, grid.6190.e, Center for Molecular Medicine Cologne (CMMC), University of Cologne, 50931, Cologne, Germany;0000 0000 8580 3777, grid.6190.e, Regional Computing Center (RRZK), University of Cologne, 50931, Cologne, Germany;0000 0001 0075 5874, grid.7892.4, Department of Economics and Management, Karlsruhe Institute of Technology, 76133, Karlsruhe, Germany;

关键词: Next generation sequencing (NGS);    Genome analysis;    iRODS;    Workflow integration;    High performance computing (HPC);    Data security;    Data consistency;    Metadata management;   

DOI  :  10.1186/s12859-018-2576-5

来源: publisher

【 摘 要 】

BackgroundThe massive amounts of data from next generation sequencing (NGS) methods pose various challenges with respect to data security, storage and metadata management. While there is a broad range of data analysis pipelines, these challenges remain largely unaddressed to date.ResultsWe describe the integration of the open-source metadata management system iRODS (Integrated Rule-Oriented Data System) with a cancer genome analysis pipeline in a high performance computing environment. The system allows for customized metadata attributes as well as fine-grained protection rules and is augmented by a user-friendly front-end for metadata input. This results in a robust, efficient end-to-end workflow under consideration of data security, central storage and unified metadata information.ConclusionsIntegrating iRODS with an NGS data analysis pipeline is a suitable method for addressing the challenges of data security, storage and metadata management in NGS environments.

【 授权许可】

CC BY