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@phac-nml

National Microbiology Laboratory

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  1. staramr staramr Public

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

    Python 178 29

  2. mob-suite mob-suite Public

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

    Python 162 33

  3. ecoli_serotyping ecoli_serotyping Public

    In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping

    Python 59 11

  4. irida irida Public

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

    Java 43 33

  5. refseq_masher refseq_masher Public

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

    Jupyter Notebook 42 4

  6. sistr_cmd sistr_cmd Public

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

    Python 32 9

Repositories

Showing 10 of 159 repositories
  • ArborView Public

    A new way to visualize beautiful phylogenetic trees alongside contextual data.

    phac-nml/ArborView’s past year of commit activity
    HTML 2 0 1 2 Updated Dec 9, 2025
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 11 Apache-2.0 3 7 13 Updated Dec 9, 2025
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 17 MIT 4 26 3 Updated Dec 8, 2025
  • measeq Public

    Measles Sequence Analysis and Automation

    phac-nml/measeq’s past year of commit activity
    Nextflow 2 MIT 1 1 0 Updated Dec 8, 2025
  • wade Public

    WGS Analysis and Detection of Molecular Markers (WADE)

    phac-nml/wade’s past year of commit activity
    R 8 Apache-2.0 3 1 0 Updated Dec 5, 2025
  • arboratornf Public

    EPS suite Arborator pipeline

    phac-nml/arboratornf’s past year of commit activity
    Nextflow 0 MIT 0 6 0 Updated Dec 4, 2025
  • typingQC Public

    Genotyping Quality Control (typingQC)

    phac-nml/typingQC’s past year of commit activity
    Nextflow 1 MIT 0 0 0 Updated Dec 4, 2025
  • snvphylnfc Public

    SNVPhyl nf-core Pipeline (Development)

    phac-nml/snvphylnfc’s past year of commit activity
    HTML 5 MIT 1 5 0 Updated Dec 2, 2025
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 1 4 0 Updated Dec 1, 2025
  • profile_dists Public

    Profile Dists: Convenient package for comparing genetic similarity of samples based on allelic profiles

    phac-nml/profile_dists’s past year of commit activity
    Python 2 Apache-2.0 1 12 0 Updated Nov 28, 2025

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