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Fig. 5 | BMC Systems Biology

Fig. 5

From: JigCell Run Manager (JC-RM): a tool for managing large sets of biochemical model parametrizations

Fig. 5

Running a simulation and visualizing the results. (left) When the user decides to run the simulation within JC-RM, a popup provides the modeler the choice to run specific nodes (shown as alphabetically sorted root nodes in the tree structure) or specific mutant configurations within each configuration. This option is useful when some mutants require longer simulation time and the modeler wants to check the behaviour of specific mutants. Colors identify nodes where all the mutant configurations are selected (green), some are omitted (cyan) or none is selected (white background, not shown). (right) Time course plots are displayed in the Results tab. Each plot is the result of running a selected Time Course node, with a specific parameter set configuration and the X/Y plot created according to the specification in the Plot graph. Each plot can be further customized, printed and saved using a contextual menu

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