Journal
BIOINFORMATICS
Volume 25, Issue 11, Pages 1457-1460Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btp173
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Funding
- National Institutes of Health [GM076570, CA109552]
- Department of Energy [DE-AC52-06NA25396]
- Arizona Biomedical Research Commission
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GetBonNie is a web-based application for building, analyzing and sharing rule-based models encoded in the BioNetGen language (BNGL). Tools accessible within the GetBonNie environment include (i) an applet for drawing graphs that correspond to BNGL code; (ii) a network-generation engine for translating a set of rules into a chemical reaction network; (iii) simulation engines that implement generate-first, on-the-fly and network-free methods for simulating rule-based models; and (iv) a database for sharing models, parameter values, annotations, simulation tasks and results.
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