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    24 repositories

    • PanGBank-wf

      Public
      A pipeline to build a PPanGGoLiN pangenome database from any source of genomes.
      Nextflow
      •
      MIT License
      •0•0•0•1•Updated Apr 30, 2026Apr 30, 2026

    • microscope-user-doc

      Public
      MicroScope Platform User Documentation
      microscope-platform
      microscope-platform
      6•3•0•0•Updated Apr 24, 2026Apr 24, 2026

    • pan2met-wf

      Public
      Predict metabolic networks at pangenome scale
      Nextflow
      •
      MIT License
      •0•1•0•0•Updated Apr 22, 2026Apr 22, 2026

    • PPanGGOLiN

      Public
      Build a partitioned pangenome graph from microbial genomes
      bioinformaticsmicrobial-genomicsmicrobiology
      bioinformaticsmicrobial-genomicsmicrobiologycomparative-genomicsbacteriapangenome
      Python
      •
      Other
      •29•298•12•1•Updated Apr 20, 2026Apr 20, 2026

    • netsyn

      Public
      NetSyn is a tool to detect conserved genomic contexts (i.e. synteny conservation) among a list of protein targets.
      Python
      •
      Other
      •2•10•0•0•Updated Apr 15, 2026Apr 15, 2026

    • metabiantes

      Public
      A tool to dump a part of the data of MetaCyc into a SQL file to be loaded in a relational database schema.
      Common Lisp
      •
      Other
      •0•0•0•0•Updated Apr 13, 2026Apr 13, 2026

    • PanGBank-api

      Public
      Python
      •
      Other
      •0•0•0•2•Updated Apr 9, 2026Apr 9, 2026

    • kegg-module-mapper

      Public
      Given a set of KEGG orthology group identifiers, identify the KEGG modules whose definition is satisfied
      Rust
      •0•0•0•0•Updated Apr 8, 2026Apr 8, 2026

    • pan2met

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Mar 30, 2026Mar 30, 2026

    • PanGBank-test-datasets

      Public
      Test data to be used for automated testing with the pangbank pipeline.
      0•0•0•0•Updated Mar 13, 2026Mar 13, 2026

    • PANORAMA

      Public
      PANORAMA Project
      bioinformaticsmicrobial-genomicsmicrobiology
      bioinformaticsmicrobial-genomicsmicrobiologycomparative-genomicsbacteriapangenome
      Python
      •
      Other
      •0•6•0•3•Updated Feb 16, 2026Feb 16, 2026

    • PanGBank-cli

      Public
      Command-line tool for retrieving pangenomes using the PanGBank API.
      bioinformaticsdatabasegenomics
      bioinformaticsdatabasegenomicscomparative-genomicspangenomeprokaryotes
      Python
      •
      Other
      •1•2•0•0•Updated Feb 5, 2026Feb 5, 2026

    • metacoco

      Public
      METAbolism COmpletion for microbial COmmunities
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 23, 2026Jan 23, 2026

    • CAESAR

      Public
      Python
      •0•0•0•0•Updated Jan 12, 2026Jan 12, 2026

    • PANORAMA_article

      Public
      A jupyter-book corresponding to PANORAMA publication.
      Jupyter Notebook
      •1•2•0•0•Updated Dec 10, 2025Dec 10, 2025

    • PanGBank-tutorial

      Public
      Some tutorials for PanGBank
      Jupyter Notebook
      •0•1•1•0•Updated Nov 27, 2025Nov 27, 2025

    • PANORAMA_test

      Public
      Dataset repository for PANORAMA GitHub test workflow
      Other
      •0•0•0•0•Updated Oct 3, 2025Oct 3, 2025

    • ASMC

      Public
      ASMC is a precision tool for deciphering the amino acid diversity that composes the active site of a given homologous protein family.
      Python
      •
      Other
      •2•6•0•0•Updated Apr 3, 2025Apr 3, 2025

    • asmc_2016

      Public
      ASMC code from de Melo-Minardi et al. (2010) [doi: 10.1093/bioinformatics/btq595], updated in 2016.
      Shell
      •
      Other
      •0•0•0•0•Updated Apr 16, 2024Apr 16, 2024

    • bioconda-recipes

      Public
      Conda recipes for the bioconda channel.
      Shell
      •
      MIT License
      •3.9k•0•0•0•Updated Feb 13, 2023Feb 13, 2023

    • phigaro

      Public
      Phigaro is a scalable command-line tool for predicting phages and prophages
      HTML
      •
      MIT License
      •15•0•0•0•Updated Apr 28, 2022Apr 28, 2022

    • PlaScope

      Public
      :microscope: :o: Plasmid exploration of bacterial genomes
      Roff
      •
      GNU General Public License v3.0
      •4•26•3•1•Updated Mar 2, 2022Mar 2, 2022

    • pangenomeNEM

      Public
      bioinformaticsmicrobiologycomparative-genomics
      bioinformaticsmicrobiologycomparative-genomics
      C
      •
      Other
      •0•4•6•1•Updated Dec 17, 2021Dec 17, 2021

    • tenacity

      Public
      Retrying library for Python
      Python
      •
      Apache License 2.0
      •323•1•0•0•Updated Mar 18, 2021Mar 18, 2021
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