A package to build metabolic models
Modelbase is a python package to help you build and analyse dynamic mathematical models of biological systems. It has originally been designed for the simulation of metabolic systems, but can be used for virtually any processes, in which some substances get converted into others.
Modelbase incorporates an easy construction method to define ‘reactions’. A rate law and the stoichiometry need to be specified, and the system of differential equations is assembled automatically.
Modelbase allows ‘algebraic modules’, which are useful to implement rapid equilibrium or quasi steady-state approximations. In the simplest instance, they allow easy incorporation of conserved quantities.
Modelbase also allows a simple construction of isotope-specific models. This class contains a constructor method that automatically construct all iosotope specific versions of a particular reaction. Very cool - check it out!
` pip install modelbase `
## Release notes
Version 0.2.3 is the official release for the submission of the mansucript “Building mathematical models of biological systems with modelbase, a Python package for semi-automatic ODE assembly and construction of isotope-specific models” to the Journal of Open Research Software.
See changelog.md for details on changes of earlier versions.