Interactive Tellurium Notebooks

IPython includes an architecture for interactive widgets that tie together Python code running in the kernel and JavaScript/HTML/CSS running in the browser. These widgets enable users to explore their code and data interactively.

Introduction

• Introduction examples

Basics

• roadrunner basics

Models & model building

• Load BioModel
• Non-unit stoichiometries
• UniUni reactions using first-order mass action kinetics
• Antimony
• Feedback oscillations
• Generate different wave forms

SED-ML

• phrasedml
• tesedml

Parameter scan

• Parameter scan
• Steady state scan
• Steady State Calculation

Widgets

In the following some example of the Tellurium work with widgets is demonstrated.

• Parameter Slider
• Species Search
• Ontology Search
• Lorenz

Template

Template file for documentation notebooks.

• template.ipynb