Time series analysis can be carried out on a PEPA model via two different techniques: ODE and SSA. The former is the result of the mapping of a PEPA model to a set of Ordinary Differential Equation, the latter runs Stochastic Simulation Algorithms on a PEPA model. These functionalities are available under the PEPA > Time Series Analysis menu and they share parts of the user interface.
To perform ODE analysis, click PEPA > Time Series Analysis > ODE.... You will be provided with a dialog box for configuring the ODE solver. On the left hand side you are required to check the components you want to investigate. The time series of each component will be shown as a different line on the 2D graph for this analysis. On the right hand side you are asked to select the ODE solver and set its main parameters (start time, stop time, step and tolerance). Output options are available to export the data model to disk. The wizard also let you save the intermediate CMDL file, which is the format used by the underlying library featuring the ODE solvers.
To perform SSA analysis, click PEPA > Time Series Analysis > SSA.... You will be provided with a similar dialog box to the ODE one. An important SSA-related parameter to set here is the number of replications used during the simulation.