metabolic-reconstruction topic
cobratoolbox
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
memote
memote – the genome-scale metabolic model test suite
gapseq
Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
RAVEN
The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
corda
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
CNApy
An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets,...
KEMET
KEGG Module Evaluation Tool
omixer-rpm
A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
GMMs
A manually curated database of human gut metabolic modules.