STEPS

1.3.0 GPL v3    
5.0/5 1

description

download

specs

STEPS is a package for exact stochastic simulation of reaction-diffusion systems in arbitrarily complex 3D geometries. Our core simulation algorithm is an implementation of Gillespie's SSA, extended to deal with diffusion of molecules over the elements of a 3D tetrahedral mesh.

While it was mainly developed for simulating detailed models of neuronal signaling pathways in dendrites and around synapses, it is a general tool and can be used for studying any biochemical pathway in which spatial gradients and morphology are thought to play a role.

We have implemented STEPS as a set of Python modules, which means STEPS users can use Python scripts to control all aspects of setting up the model, generating a mesh, controlling the simulation and generating and analyzing output. The core computational routines are still implemented as C/C++ extension modules for maximal speed of execution.

STEPS is distributed under the GPL v3 license.
read more   
Last updated on December 8th, 2011

0 User reviews so far.

SUBMIT
STochastic Engine for Pathway Simulation

  525 downloads

#STochastic engine #pathway simulation #stochastic simulation #STochastic #pathway #simulation #3D