Metabolic Engineering Python Packages

teemi

teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, design libraries, and track samples. Open-source Python platform for workflow flexibility and automated tasks, accelerating metabolic engineering. Try teemi with our Google Colab notebooks!

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!

optlang-enumerator

Module for enumerating minimal cut sets

retropath2-wrapper

'python wrapper to run retropath2.0 knime workflow'

optithor

Linear-programming–based optimization of microbial growth media under elemental stoichiometric constraints.