Space

1D PDE Barkley Model

Derived from the seminal Hodgkin-Huxley and FitzHugh-Nagumo models, the Barkley model is probably the simplest continuous model for excitable media. It replaces the cubic term in the FitzHugh-Nagumo model with a piece-wise linear term as a simplification that enables fast simulation.

Try the Examples

Examples Menu To explore the potential and modeling features, it is the best to learn by example. Morpheus comes with a range of fully functional example models showcasing a number of model formalism and modeling features.

Step-by-Step Example

To show SBML support in Morpheus as of version 2.1 in practice, we give a step-by-step example of how to download, import and extend an SBML model. 1. Get an SBML Model from BioModels First, we browse the BioModels model repository and select a model.

Convert to 2D

Converting the model from the previous chapter into a 2D model is trivial in Morpheus. In the Space section, you only need to change the Size of the Lattice to e.

Coupled ODE Lattice: Lateral Signaling

Morpheus Model ID: M0004 Open in Morpheus History Persistent Identifier Use this permanent link to cite or share this Morpheus model: Copy Introduction This example model cell fate decisions during early patterning of the pancreas (de Back et al.

Neighborhoods

“How are neighborhoods defined?” Types of Neighborhoods Types of neighborhood are used: Space → Lattice → Neighborhood: This is the default Neighborhood for the lattice. It ist used by the NeighborhoodReporter and fallback for all other Neighborhood definitions.