StochPy: Stochastic modeling in Python
Project description
StochPy (Stochastic modelling in Python) is an easy-to-use package, which provides several stochastic simulation algorithms (SSAs), which can be used to simulate biochemical systems in a stochastic manner. Further, several unique and easy-to-use analysis techniques are provided by StochPy. Also, StochPy fully supports SBML input, if sufficient libraries are installed.
SSA’s try to describe the time evolution of a reacting system, such that it takes into account discreteness and stochasticity. Discreteness and stochasticity play often important roles in biochemical systems. Therefore, SSA’s are widely used to simulate biochemical systems. Especially for biochemical systems that contain low copy numbers. For such systems, deterministic models often fail to capture the stochasticity of the system, while SSAs are capable of capturing this stochastic behaviour.
StochPy is an extension of PySCeS. PySCeS - the Python Simulator for Cellular Systems - is a toolkit for the analysis and investigation of cellular systems.
StochPy’s features:
Stochastic Simulations
Sophisticated Analysis Techniques
Usable as a Library
Accepts SBML and PySCeS input
Multi-Platform
User-Friendly
StochPy is an extension of PySCeS. PySCeS - the Python Simulator for Cellular Systems - is an extendable toolkit for the analysis and investigation of cellular systems.
Note: there was a small bug in one of the examples of the release of 1.0.2. I removed this bug and uploaded the files of this version again.
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