controlSBML: Control engineering with SBML models

controlSBML provides a bridge between SBML models and the CalTech control systems library. At the lowest level, this bridge wraps an SBML model as an object known to the control package so that its tools can be applied to SBML models. The approach is:

  1. Construct a controlSBML.ControlSBML object for the SBML model.

  2. From this object, obtain objects used in the control package.

    1. control.NonlinearIOSystem objects wrap the entire SBML model to construct computational testbeds for closed loop systems.

    2. control.StateSpace objects are linear approximations to the SBML model for control analysis and design using transfer functions.

  3. Do control analysis and design using the control package.

Below, we provide an overview of the features of controlSBML. Readers who are less familiar with control engineering are encouraged to read the Concepts section:.

In addition to providing a bridge between SBML and the control package, controlSBML provides the following.

  1. Automating the construction of models of elements in a closed loop system; in particular, controllers and filters. This is done through the use of element factories that create NonlinearIOSystem objects that can be used in the evaluation of closed loop designs.

  2. Methods to aid in system identification of SBML models as transfer functions.

  3. System factories for constructing commonly used elements of closed loop control.

  4. Closed loop factories for building an entire closed loop systems.

  5. Convenience methods for control analysis and design. Typically, these are a simplified way to access capabilities that are provided by the control pacakge, possibly with some new features.

Contents:

Indices and tables