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Figure 1 | BMC Systems Biology

Figure 1

From: Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language

Figure 1

The role of SED-ML in a modeler's simulation workflow. To reuse an existing model in a simulation tool, end-users (1) need to retrieve the model from a repository, (2) read the reference publication to apply the correct pre-processing to the model, and then (3) configure the simulation tool. SED-ML improves the situation by allowing to encode all these steps computationally. A user thus can store, archive, and export simulation experiment descriptions for his own records or for sharing with fellow researchers. Two arrows are used from "time plot" to "SED-ML" to depict that the SED-ML model will either be exported and stored as SED-ML, or shared with a fellow researcher. The dashed line is the starting point of the figure, with a researcher aiming at reusing a model from a repository in a simulation.

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