LabKey Server
| Developer(s) | LabKey Software Foundation |
|---|---|
| Stable release | 14.2[1] / June 14, 2014 |
| Development status | Active |
| Written in | Java |
| Operating system | Cross-platform |
| License | Apache License 2.0 |
| Website | http://www.labkey.org |
LabKey Server is free, open source software available for scientists to integrate, analyze, and share biomedical research data. The platform provides a secure data repository that allows web-based querying, reporting, and collaborating across a range of data sources. Specific scientific applications and workflows can be added on top of the basic platform and leverage a data processing pipeline.
Contents
License
The LabKey Software Foundation licenses LabKey Server and its documentation for free under the Apache License.[2]
Languages and extensibility
The base platform is written in Java. It can be extended through the addition of Java-based modules or simple, file-based modules written in HTML, XML and JavaScript.[3] The platform can also be extended using LabKey Server's Java, JavaScript, R, Python, Perl and SAS client libraries.[4]
History
LabKey Server was spun out of the Computational Proteomics Lab at the Fred Hutchinson Cancer Research Center after contributors realized that the software could be beneficial to the broader scientific community. The software was originally called the Computational Proteomics Analysis System (CPAS).[5][6][7]
Features
LabKey Server provides a secure data repository for all types of biomedical data, including mass spectrometry, flow cytometry, microarray, microplate, ELISpot, ELISA, NAb and observational study information. A customizable data processing pipeline allows the upload and processing of the large data files common in biomedical research.
The platform also provides domain-specific support for several areas of research, including:
- Observational Studies. Supports management of longitudinal, large-scale studies of participants, subjects or animals over time. Allows the integration of clinical data with assay results.
- Proteomics. Allows the processing of high-throughput mass spectrometry data using tools such as the X! Tandem search engine, the Trans-Proteomic Pipeline, Mascot and Sequest. Certified as "Silver-Level Compliant Data Service" with the caBIG standard.
- Flow Cytometry. Supports automated quality control, centralized data management and web-based data sharing. Integrates with FlowJo.
Users
Users range from individual labs to large research consortia. Current users include:[8]
- Fred Hutchinson Cancer Research Center
- Statistical Center for HIV/AIDS Research and Prevention (SCHARP)
- Center for HIV-AIDS Vaccine Immunology (CHAVI) at Duke University
- Collaboration for AIDS Vaccine Discovery (CAVD), funded by the Gates Foundation
- Wisconsin National Primate Research Center
- International AIDS Vaccine Initiative (IAVI)
- Infectious Disease Research Institute (IDRI)
- Cedars-Sinai Medical Center
- Harvard Partners
- University of Washington
- University of Michigan
- University of Kentucky
- University of Wisconsin
- Institute of Molecular and Cell Biology (Singapore)
Publications
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References
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- ↑ http://www.fhcrc.org/content/public/en/news/center-news/2005/03/wizards-computational-science.html
- ↑ Lua error in package.lua at line 80: module 'strict' not found.
- ↑ Lua error in package.lua at line 80: module 'strict' not found.
External links
- LabKey Server. The official web site for the LabKey Software Foundation includes documentation and community support forums.
- LabKey Software. LabKey Software provides professional customization and support for LabKey Server.
