Cobrapy Python Packages

riptide

Reaction Inclusion by Parsimony and Transcript Distribution

micom

Python package to study microbial communities using metabolic modeling.

straindesign

StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy

biosimulators-cobrapy

COBRApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container

modelseedpy

Python package for building and analyzing models using ModelSEED

efmlrs

Python package and workflow for EFM calculation via (mp)lrs and efmtool

miom

Constraint-based modeling of metabolism using Mixed Integer Optimization

findcpcore

findCP core package - find ChokePoint reactions in genome-scale metabolic models

corda

An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al

modelseedpy-freiburgermsu

Python package for building and analyzing models using ModelSEED

findcpcli

findCP CLI package - find ChokePoint reactions in genome-scale metabolic models

ssbio

A Python framework for structural systems biology

multitfa

Multivariate thermodynamics-based metabolic flux analysis in Python.

contrabass

Constraint-based model vulnerabilities analysis - Python analysis tool http://contrabass.unizar.es

parmmosahn

Species-agnostic pipeline that builds a pangenome-reference metabolic model and rapidly derives consistent, gap-filled strain-specific genome-scale models from bacterial genomes.