COBRApy is a package for constraint-based modeling of metabolic networks.
💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
CarveMe: genome-scale metabolic model reconstruction
single cell Flux Estimation Analysis (scFEA) Try the below web server!
Multi-dimensional, trans-omics metabolic maps.
scCellFie infers metabolic activities from single-cell and spatial transcriptomics and offers a variety of downstream analyses.
Visualization and analysis platform for metabolic data and network pattern recognition
A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
A Python parser for the BRENDA database
EMBL GEMs: A collection of GEnome-scale Models for bacterial species
R package to Import and Modify SVG (XML) Graphic Files
framed: a metabolic modeling package for python
Open source genome-scale metabolic models of human and model animals
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
Deep hybrid modeling of bioreactor cell culture data using Long Short-Term Memory (LSTM) networks combined with first principles equations
Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)
A python library for single-cell metabolism data analysis.
A scientific exploration of Metabolic Tokenomics, the framework that models token economies as living metabolic systems. Examines how tokens burn, store, and circulate energy like biological cells, mapping catabolism, anabolism, liquidity flow, yield dynamics, and system health to design resilient, adaptive on-chain ecosystems.
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