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    13 repositories

    • ecFBA-epistasis

      Public
      Genetic interactions of an enzyme-constrained metabolic model as a function of protein availability
      geckoepistasisyeast
      geckoepistasisyeastflux-balance-analysisenzyme-constrained
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 11, 2026Sep 11, 2026

    • MBSNetwork

      Public
      MBSNetwork - Metal binding site network
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Sep 11, 2026Sep 11, 2026

    • csdR

      Public
      Efficient CSD implementation in R
      R
      •
      GNU General Public License v3.0
      •1•7•0•0•Updated Jan 16, 2026Jan 16, 2026

    • elixir-galaxy-tools-systemsbiology

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 12, 2024Dec 12, 2024

    • AutoKEGGRec

      Public
      AutoKEGGRec is an automated tool that creates first draft metabolic network reconstructions of single organisms, community reconstructions based on a list of or…
      MATLAB
      •
      GNU General Public License v3.0
      •2•8•0•0•Updated Mar 21, 2024Mar 21, 2024

    • autopacmen

      Public
      Retrieves kcat data and adds protein allocation constraints to stoichiometric metabolic models according to the sMOMENT method
      HTML
      •
      Apache License 2.0
      •8•0•0•0•Updated Jul 7, 2023Jul 7, 2023

    • BayesianGEM

      Public
      This repository contains code and data needed to replicate the analysis carried out in the manuscript Pettersen J and Almaas A. 2023.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •4•1•0•0•Updated Jun 21, 2023Jun 21, 2023

    • T66-GEM

      Public
      GEM for Aurantiochytrium sp. T66
      standard-gemgenome-scale-modelthraustochytrid
      standard-gemgenome-scale-modelthraustochytridaurantiochytrium
      Python
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Jun 13, 2023Jun 13, 2023

    • BiGMeC

      Public
      BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •4•18•0•0•Updated May 14, 2023May 14, 2023

    • acidFBA

      Public
      MATLAB
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 22, 2022Jul 22, 2022

    • micInt

      Public
      R package for analyzing microbial co-occurences
      rdata-manipulationco-occurence
      rdata-manipulationco-occurencemicrobiome-analysisphyloseq
      R
      •0•1•0•0•Updated Mar 10, 2022Mar 10, 2022

    • SystemsBrewology

      Public
      0•0•0•0•Updated Jun 18, 2021Jun 18, 2021

    • CarveFungi

      Public
      Python
      •
      GNU General Public License v3.0
      •5•0•0•0•Updated Feb 10, 2021Feb 10, 2021
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