Welcome to SBMLKinetics’s documentation!

Contents:

• Introduction
  • Installation
• Methods
  • Define kinetics type (K type)
  • Define reaction type (R type)
• Core Concepts
  • K Type
  • R Type
• Tutorial
• Examples
• Query Methods
  • Query Distributions
  • Query Elements
• Plot Methods

Introduction

SBMLKinetics is a Python package to evaluate and classify kinetics in SBML models. There are many possible kinetics like the zeroth order, mass action, Michaelis-Menten, Hill kinetics and others. This work characterizes the kinetics in the BioModels Database as an example to improve modeling best practices. Our tool can analyze any data sets with SBML files as input. Users can also use this tool to compare different data sets. For instance, we compare the distribution of kinetics for the signaling and metabolic networks and find the substantial differences between two types of networks. If you are using any of the code, please cite the article (https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05380-3) and the PYPI web page (https://pypi.org/project/SBMLKinetics/).