COBRApy is a package for constraint-based modeling of metabolic networks.
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Updated
Sep 19, 2024 - Python
COBRApy is a package for constraint-based modeling of metabolic networks.
Computational synthetic biology: Predicting DNA edits for bioengineering
Infer metabolic directions from moment differences of mass-weighted intensity distributions
A python library for metabolic networks sampling and analysis
debugging biological networks to reach coherence, completeness and consistency
Curation and analysis of metabolic models
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
Go REST API to replace Genbank, Uniprot, Rhea, and CHEMBL
Open source genome-scale metabolic models of human and model animals
Pathway Tools multiprocessing wrapper (for PathoLogic).
A Universal Modeling Language for Metabolic Flux Analysis
Genome-scale model of Yarrowia lipolytica.
R codes for creating metamapp graphs and files
MOOMIN is a tool for analysing differential expression data
🗺️ A repository of CNApy projects
MetEvolSim (Metabolome Evolution Simulator). A Python package to simulate the long-term evolution of metabolic levels.
An R package to find the gaps in metabolic networks, and fill it from the stoichiometric reactions of a reference metabolic reconstruction using a weighting function. Also include the option to download all the set of gene-associated stoichiometric reactions for a specific organism from the KEGG database.
TRIMER is a package for building integrated metabolic–regulatory models base on Bayesian network. TRIMER can be used for knockout phenotype prediction and knock flux prediction.
Kinetic modeling of glucose and acetate metabolisms in E. coli
Diversity-based enumeration of optimal context-specific metabolic networks
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