franciscozorrilla

metaGEM

:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

SymbNET

Teaching materials for SymbNET course: from MAGs to GEMs

EMBOMicroCom

Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022

unseenbio_metaGEM

metaGEM applied to unseenbio WGS sequencing samples

metaGEM_paper

Repo housing :gem: metaGEM paper results

systems-biology-fba-practical

University of Cambridge Part III Systems Biology course, practical exercises for learning flux balance analysis

Chalmers-iGEM2018

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.

EMBOMicroCom2

Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2024

lichens

Metabolic modeling of lichen metagenomes

bioconda-recipes

Conda recipes for the bioconda channel.

franciscozorrilla

franciscozorrilla.github.io

kefir_paper

Supplementary Material for Blasche et al

melanie_screen_GEMs

This repo contains inputs, outputs, and step-by-step details regarding how genome scale metabolic models were reconstructed for strains used in Melanie's screen.

S.coelicolor

soil_auxo