Learn metabolic modelling and using ScrumPy for modelling.
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Updated
Mar 15, 2022 - HTML
Learn metabolic modelling and using ScrumPy for modelling.
Collection of scripts to collect data from databases such as BRENDA, BiGG, and the chemical translation service, and update a model of CHO-K1 growth.
Supplementary code and results from doi:10.1101/2020.02.20.957662
Collection of scripts for enhancing humanGEM based models with kinetic and proteomics constraints and specialized simulation utilities.
COM-dFBA is a MATLAB based COMmunity Dynamic Flux Balance Analysis framework developed by the Chalmers iGEM 2018 team. For this work, we were nominated for best modeling at the Giant Jamboree.
iPfal17 genome-scale metabolic reconstruction; lipid metabolism curation
A metabolic modeling workflow for communities of organisms in an nasal medium.
Integration of cofactors with proteome-constrained model of Saccharomyces cerevisiae
Genome scale metabolic model for Ogataea polymorpha NCYC495.
mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models
Methanoperedens nitroreducens genome-scale metabolic model.
GEM for the microalga Microchloropsis gaditana.
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.
Proteome-constrained model of Lactococcus lactis
58 GEMs for gut bacterial species from microbiota of healthy and malnourished children.
Genome-scale metabolic model of Cordyceps militaris
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