The Bio-PEPA Eclipse Plugin

The Bio-PEPA Eclipse Plugin is one of the Bio-PEPA tools currently being developed at Edinburgh University. Currently the plugin enables the Eclipse Workbench to edit and analyse Bio-PEPA models.

Key features of the Bio-PEPA Eclipse Plugin include:

  • Entirely cross-platform. The plugin works on Windows, OS X and linux.
  • A basic editor for Bio-PEPA models, including keyword highlighting (applicable screenshot).
  • An outline view of the model, showing a reaction-centric view in comparison to the reagent-centric of Bio-PEPA (applicable screenshot).
  • Solve the model using either ODEs or SSAs, both families of solvers built directly into the plugin.
  • View the results immediately from within the plugin, and save the results as csv (applicable screenshot).

Screenshots of the Bio-PEPA Eclipse Plugin

Two views of a Bio-PEPA model with errors
screenshot of the plugin

An expanded view of the outline of the correct model
screenshot of the plugin

The time-series results from the ODE analysis
screenshot of the plugin