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The ERATO Systems Biology Workbench: Enabling Interaction and Exchange Between Software Tools for Computational Biology
| Content Provider | Semantic Scholar |
|---|---|
| Author | Hucka, Michael Finney, Andrew Sauro, Herbert M. Bolouri, H. Doyle, John Kitano, Hiroaki |
| Copyright Year | 2002 |
| Abstract | Researchers in computational biology today make use of a large number of different software packages for modeling, analysis, and data manipulation and visualization. In this paper, we describe the ERATO Systems Biology Workbench (SBW), a software framework that allows these heterogeneous application components--written in diverse programming languages and running on different platforms--to communicate and use each others' data and algorithmic capabilities. Our goal is to create a simple, open-source software infrastructure which is effective, easy to implement and easy to understand. SBW uses a broker-based architecture and enables applications (potentially running on separate, distributed computers) to communicate via a simple network protocol. The interfaces to the system are encapsulated in client-side libraries that we provide for different programming languages. We describe the SBW architecture and the current set of modules, as well as alternative implementation technologies. |
| Starting Page | 180 |
| Ending Page | 200 |
| Page Count | 21 |
| File Format | PDF HTM / HTML |
| Alternate Webpage(s) | http://psb.stanford.edu/psb-online/proceedings/psb02/hucka.pdf |
| Alternate Webpage(s) | http://www.smi.stanford.edu/projects/helix/psb02/hucka.pdf |
| Alternate Webpage(s) | http://uhra.herts.ac.uk/bitstream/handle/2299/11944/906575.pdf?sequence=2 |
| Alternate Webpage(s) | http://www.cds.caltech.edu/~mhucka/publications/hucka_2002.pdf |
| Alternate Webpage(s) | http://helix-web.stanford.edu/psb02/hucka.pdf |
| Alternate Webpage(s) | http://authors.library.caltech.edu/36246/1/hucka_2002.pdf |
| Alternate Webpage(s) | http://sbw.sourceforge.net/sbw/docs/psb2002/mhucka-distrib.pdf |
| PubMed reference number | 11928498v1 |
| Journal | Pacific Symposium on Biocomputing |
| Language | English |
| Access Restriction | Open |
| Subject Keyword | Client-side Communications protocol Component-based software engineering Computational biology Computer Computers Genetic Heterogeneity Libraries Open-source software Programming Languages Programming language Software framework Spy-Bi-Wire Systems biology Workbench |
| Content Type | Text |
| Resource Type | Article |
