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    46 repositories

    • ModelSEEDDatabase

      Public
      This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach
      modelseed
      HTML
      •
      Other
      •40•58•23•2•Updated Dec 19, 2024Dec 19, 2024

    • PlantSEED

      Public
      Repository for containing code and files that pertain to the use of PlantSEED in the ModelSEED environment
      Perl
      •8•6•13•0•Updated Dec 11, 2024Dec 11, 2024

    • MicrobiomeNotebooks

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Dec 9, 2024Dec 9, 2024

    • ModelSEEDpy

      Public
      Python package for building and analyzing models using ModelSEED
      cobracobrapymodelseed
      Python
      •
      MIT License
      •17•19•6•4•Updated Nov 29, 2024Nov 29, 2024

    • KB-ModelSEEDReconstruction

      Public
      Python
      •
      MIT License
      •1•3•0•0•Updated Nov 21, 2024Nov 21, 2024

    • KBaseNotebooks

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • editEscher

      Public
      A library for editing Escher Metabolic Network maps
      0•0•0•0•Updated Oct 25, 2024Oct 25, 2024

    • ModelSEED2Notebooks

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Oct 8, 2024Oct 8, 2024

    • AGORA2_genomes

      Public
      The genomes associated with the AGORA2 gut microbiome models
      0•0•0•0•Updated Sep 11, 2024Sep 11, 2024

    • MSGoogleColab

      Public
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Sep 4, 2024Sep 4, 2024

    • MSDatabaseNotebooks

      Public
      Notebooks that manipulate the ModelSEED Database
      Jupyter Notebook
      •1•0•0•0•Updated Aug 1, 2024Aug 1, 2024

    • KB-ModelSEEDCommunity

      Public
      KBase SDK module for community modeling apps created and managed by the ModelSEED team
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 3, 2024Apr 3, 2024

    • OntologyNotebooks

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Mar 14, 2024Mar 14, 2024

    • ModelSEED-UI

      Public
      ModelSEED UI (beta)
      HTML
      •
      MIT License
      •7•8•27•6•Updated Feb 13, 2024Feb 13, 2024

    • PhenotypeNotebooks

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Feb 1, 2024Feb 1, 2024

    • KB-CommunityModeling

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 16, 2024Jan 16, 2024

    • KB-ProbabilisticModeling

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 16, 2024Jan 16, 2024

    • MAGNotebooks

      Public
      0•0•0•0•Updated Jan 15, 2024Jan 15, 2024

    • BRAVENotebooks

      Public
      0•0•0•0•Updated Jan 15, 2024Jan 15, 2024

    • SynBioNotebooks

      Public
      0•0•0•0•Updated Jan 15, 2024Jan 15, 2024

    • ProjectNotebooks

      Public archive
      Repository for Jupyter notebooks and associated data for various research projects of the ModelSEED team
      Jupyter Notebook
      •3•1•0•1•Updated Jan 12, 2024Jan 12, 2024

    • AGORA2_models

      Public
      0•0•0•0•Updated Jan 2, 2024Jan 2, 2024

    • ModelSEEDTemplates

      Public
      Ruby
      •
      MIT License
      •0•1•0•0•Updated Oct 13, 2023Oct 13, 2023

    • GenomeImporter

      Public
      Module for importing a genome into KBase from SEED, PATRIC, or RAST
      Perl
      •
      MIT License
      •0•0•0•0•Updated Oct 6, 2023Oct 6, 2023

    • MSSeedSupportServer

      Public
      Server to support authentication and retrieval of genomes from the SEED environment
      Perl
      •1•0•0•0•Updated Jun 27, 2023Jun 27, 2023

    • KB-ModelSEEDCOBRA

      Public
      KBase SDK module for model analysis apps created and managed by the ModelSEED team
      cobracobrapykbasekbase-sdkmodelseed
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 18, 2023Jan 18, 2023

    • MFAToolkit

      Public
      A toolkit for performing flux balance analysis, reaction network analysis, biochemical analysis, and biochemical property prediction
      C++
      •4•3•3•0•Updated Nov 2, 2022Nov 2, 2022

    • KB-QuantitativePlantAnalysis

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 26, 2022Aug 26, 2022

    • ModelSEED-REST

      Public
      Experimental JSON REST API for ModelSEED (not supported)
      JavaScript
      •
      MIT License
      •2•0•0•1•Updated Apr 14, 2022Apr 14, 2022

    • ProbModelSEED

      Public
      Perl
      •
      Other
      •3•2•31•0•Updated Apr 5, 2022Apr 5, 2022