Flux Balance Analysis Python Packages

biosimulators-cobrapy

BioSimulators-compliant command-line interface to the COBRApy simulation program <https://opencobra.github.io/cobrapy/>.

biosimulators-cbmpy

BioSimulators-compliant command-line interface to the CBMPy simulation program <http://cbmpy.sourceforge.net/>.

cnapy

An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

biosimulations-bigg

Command-line program and scheduled GitHub action for publishing the BiGG model repository to BioSimulations

miom

Mixed Integer Optimization for Metabolism

contrabass

Constraint-based model vulnerabilities analysis

pymcadre

pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.

cellmetpro

Analyse cellular metabolic states of cells from scRNA-seq data using FBA and Genome-scale Metabolic Models

pymgpipe

Python implementation of mgpipe

fastsl

Python implementation of FastSL