SODAR

F.A.I.R. data management for omics (genomics, metabolomics, proteomics) studies. Web interface for biomedical scientist and command line interface and API for bioinformaticians.

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Features

• Scalable data storage for
  • NGS raw data & metadata
  • Processing Results
  • Extendable metadata model, based on the ISA Tools Standard
• IGV and UCSC Integration
• Data Privacy
  • Charité & MDC user authentification
  • Project based authorization with different access levels
  • Full audit trails
• Web-based graphical user interface for biomedical scientists
• REST API for data/systems integration
• Command line interfaces for bioinformaticians
• Data storage built on iRODS
• Metadata editor
• In use for 300+ projects with 350TB+ of stored data

Related CUBI Resources

• Description of the local SODAR resource
• SODAR manual
• BIH/MDC/Charite instance is reachable from internal networks

Technology

Talk on the technolgy and use cases at the iRODS User Group Meeting in Holland 2019, https://irods.org/ugm2019/, 30 minutes on youtube

Licence and Availabilty

• Availabilty
  • Published on GitHub under the MIT license
  • SODAR Server repository
  • SODAR Docker Compose network for evaluation, development and deployment
• Contact: Mikko Nieminen

Related Publications

M. Nieminen, O. Stolpe, F. Schumann, M. Holtgrewe, D. Beule
*SODAR Core: a Django-based framework for scientific data management and analysis web apps, DOI

Last modified: Jan 1, 0001