ReFramed documentation

ReFramed is a Python 3 library for metabolic model simulation.

It currently supports 15 different constraint-based simulation methods (FBA variants), including knockout simulation, thermodynamic analysis, protein allocation, transcriptomics integration, and community simulation. Please read the following sections for more details.

Contents:

• Installation
  • Stable release
  • Solvers
• Basic usage
  • Loading and saving
  • Model manipulation
• Simulation
  • Basics
  • Using Environments
• Interfaces
  • CobraPy
  • Escher

API:

• reframed

Indices and tables

• Index
• Module Index
• Search Page