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Genomics. 2012 Dec;100(6):345-51. doi: 10.1016/j.ygeno.2012.08.005. Epub 2012 Aug 27.

The Wasp System: an open source environment for managing and analyzing genomic data.

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  • 1Center for Epigenomics and Division of Computational Genetics, Department of Genetics, Albert Einstein College of Medicine, 1301 Morris Park Avenue, Bronx, NY 10461, USA. andrew.mclellan@einstein.yu.edu

Abstract

The challenges associated with the management, analysis and interpretation of assays based on massively-parallel sequencing (MPS) are both individually complex and numerous. We describe what we believe to be the appropriate solution, one that represents a departure from traditional computational biology approaches. The Wasp System is an open source, distributed package written in Spring/J2EE that creates a foundation for development of an end-to-end solution for MPS-based experiments or clinical tests. Recognizing that one group will be unable to solve these challenges in isolation, we describe a nurtured open source development model that will allow the software to be collectively used, shared and developed. The ultimate goal is to emulate resources such as the Virtual Observatory of the astrophysics community, enabling computationally-inexpert scientists and clinicians to explore and interpret their MPS data. Here we describe the current implementation and development of the Wasp System and the roadmap for its community development.

Copyright © 2012 Elsevier Inc. All rights reserved.

PMID:
22944616
[PubMed - indexed for MEDLINE]
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