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@AuReMe

AuReMe

AUtomated REconstruction of MEtabolic models

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  1. metage2metabo metage2metabo Public

    From annotated genomes to metabolic screening in large scale microbiotas

    Jupyter Notebook 57 7

  2. mpwt mpwt Public

    Pathway Tools multiprocessing wrapper (for PathoLogic).

    Python 14

  3. emapper2gbk emapper2gbk Public

    Forked from ArnaudBelcour/gff_to_gbk

    Convert GFF, fastas, annotation table and species name into Genbank.

    Python 14 6

  4. padmet padmet Public

    Python library for hAndling metaData of METabolism.

    Python 6 2

  5. aucome aucome Public

    Automatic Comparison of Metabolism

    Python 6

  6. mpwt-docker mpwt-docker Public

    A dockerfile for multiprocessing Pathway-Tools.

    Dockerfile 3 1

Repositories

Showing 10 of 18 repositories
  • metage2metabo Public

    From annotated genomes to metabolic screening in large scale microbiotas

    AuReMe/metage2metabo’s past year of commit activity
    Jupyter Notebook 57 LGPL-3.0 7 7 1 Updated May 16, 2025
  • emapper2gbk Public Forked from ArnaudBelcour/gff_to_gbk

    Convert GFF, fastas, annotation table and species name into Genbank.

    AuReMe/emapper2gbk’s past year of commit activity
    Python 14 LGPL-3.0 10 8 0 Updated May 16, 2025
  • MeReco Public

    This is the complete workflow to generate metabolic networks at padmet format from genome fasta files (for now, only bacterial)

    AuReMe/MeReco’s past year of commit activity
    0 GPL-3.0 0 0 0 Updated May 14, 2025
  • esmecata Public

    From taxonomic affiliations to annotated consensus proteomes using UniProt database.

    AuReMe/esmecata’s past year of commit activity
    Python 3 GPL-3.0 1 1 0 Updated May 12, 2025
  • prolipipe Public Forked from ytirlet/prolific

    The prolific pipeline is about genome annotation and metabolic pathway reconstruction. From .fasta genomes, it enables to find if strains of bacteria are theorically able to produce metabolites

    AuReMe/prolipipe’s past year of commit activity
    Python 2 GPL-3.0 2 0 0 Updated Apr 24, 2025
  • Ontosunburst Public Forked from PaulineGHG/Ontology_sunburst

    Sunburst representation of ontologies

    AuReMe/Ontosunburst’s past year of commit activity
    Python 2 GPL-3.0 1 0 0 Updated Apr 23, 2025
  • mpwt Public

    Pathway Tools multiprocessing wrapper (for PathoLogic).

    AuReMe/mpwt’s past year of commit activity
    Python 14 LGPL-3.0 0 5 0 Updated Apr 2, 2025
  • mpwt-docker Public

    A dockerfile for multiprocessing Pathway-Tools.

    AuReMe/mpwt-docker’s past year of commit activity
    Dockerfile 3 1 0 0 Updated Mar 31, 2025
  • aucome Public

    Automatic Comparison of Metabolism

    AuReMe/aucome’s past year of commit activity
    Python 6 GPL-3.0 0 2 0 Updated Nov 13, 2024
  • MeneVal Public
    AuReMe/MeneVal’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Nov 6, 2024
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