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

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.

► The amount of data generated by new sequencing assays is increasing rapidly. ► Researchers have difficulty exploring the results of these assays independently. ► A system allowing intuitive visual representations of data would be very valuable. ► Paradigms exist outside biology such as the Virtual Observatory in astrophysics. ► The Wasp System is a foundation for intuitive studies of molecular biological data.