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National Microbiology Laboratory

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  1. mob-suite mob-suite Public

    MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies

    Python 126 32

  2. staramr staramr Public

    Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

    Python 126 28

  3. ecoli_serotyping ecoli_serotyping Public

    In silico prediction of E. coli serotype

    Python 51 11

  4. irida irida Public

    Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology

    Java 40 31

  5. refseq_masher refseq_masher Public

    Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database

    Jupyter Notebook 40 4

  6. sistr_cmd sistr_cmd Public

    SISTR (Salmonella In Silico Typing Resource) command-line tool

    Python 26 9

Repositories

Showing 10 of 144 repositories
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 9 Apache-2.0 3 15 7 Updated Jan 13, 2025
  • legiovue Public

    A nextflow pipeline for whole-genome analysis of *Legionella pneumophila*

    phac-nml/legiovue’s past year of commit activity
    Nextflow 0 MIT 1 3 1 Updated Jan 13, 2025
  • fastmatchirida Public

    Quickly refines a reference set of samples based on distance.

    phac-nml/fastmatchirida’s past year of commit activity
    HTML 1 MIT 0 0 1 Updated Jan 10, 2025
  • irida Public

    Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology

    phac-nml/irida’s past year of commit activity
    Java 40 Apache-2.0 31 168 6 Updated Jan 10, 2025
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 0 3 0 Updated Jan 9, 2025
  • CryptoGenotyper Public

    CryptoGenotyper is a tool that allows for subtyping the parasite, Cryptosporidium

    phac-nml/CryptoGenotyper’s past year of commit activity
    Python 0 1 3 0 Updated Jan 8, 2025
  • galaxy_tools Public

    Contains a set of Galaxy Tools mostly written by the Bioinformatics core at NML

    phac-nml/galaxy_tools’s past year of commit activity
    Perl 15 Apache-2.0 25 11 18 Updated Dec 30, 2024
  • gasclustering Public
    phac-nml/gasclustering’s past year of commit activity
    Nextflow 0 MIT 0 2 0 Updated Dec 23, 2024
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 15 MIT 2 21 1 Updated Dec 23, 2024
  • irida-galaxy-importer Public

    A tool for importing data from IRIDA into Galaxy

    phac-nml/irida-galaxy-importer’s past year of commit activity
    Python 7 Apache-2.0 3 3 0 Updated Dec 23, 2024