FAME, the Flux Analysis and Modeling Environment

摘要: Background: The creation and modification of genome-scale metabolic models is a task that requires specialized software tools. While these are available, subsequently running or visualizing model often relies on disjoint code, which adds additional actions to the analysis routine and, in our experience, renders applications suboptimal for use by (systems) biologists. Results: Flux Analysis Modeling Environment (FAME) first web-based modeling tool combines tasks creating, editing, running, analyzing/visualizing stoichiometric into single program. results can be automatically superimposed familiar KEGG-like maps. FAME written PHP uses Python-based PySCeS-CBM its linear solving capabilities. It comes with comprehensive manual quick-start tutorial, accessed online at http://f-a-m-e.org/. Conclusions: With FAME, we present community an open source, user-friendly, “one stop shop” modeling. We expect application will substantial investigators educators alike.