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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 186 29

  2. mob-suite mob-suite Public

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

    Python 169 33

  3. ecoli_serotyping ecoli_serotyping Public

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

    Python 65 11

  4. irida irida Public

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

    Java 43 32

  5. refseq_masher refseq_masher Public

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

    Jupyter Notebook 43 4

  6. sistr_cmd sistr_cmd Public

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

    Python 32 9

Repositories

Showing 10 of 160 repositories
  • phac-nml/metadatatransformation’s past year of commit activity
    Nextflow 0 MIT 0 3 1 Updated Feb 26, 2026
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 13 Apache-2.0 3 6 21 Updated Feb 26, 2026
  • submitdatairidanext Public

    Pipeline for submitting data to INSDC databases for IRIDA Next

    phac-nml/submitdatairidanext’s past year of commit activity
    Nextflow 1 MIT 0 3 1 Updated Feb 25, 2026
  • fetchdatairidanext Public

    Pipeline for downloading data from INSDC databases for IRIDA Next.

    phac-nml/fetchdatairidanext’s past year of commit activity
    Nextflow 0 MIT 2 3 0 Updated Feb 25, 2026
  • viralassembly Public

    Assemble and QC viral reads with a reference scheme

    phac-nml/viralassembly’s past year of commit activity
    Nextflow 1 MIT 1 0 2 Updated Feb 25, 2026
  • venae Public

    A workflow to rapidly identify species and antimicrobial resistance genes in positive blood cultures sequenced using Oxford Nanopore Technologies (ONT)

    phac-nml/venae’s past year of commit activity
    HTML 1 Apache-2.0 0 0 0 Updated Feb 25, 2026
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 16 MIT 4 18 2 Updated Feb 24, 2026
  • staramr Public

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

    phac-nml/staramr’s past year of commit activity
    Python 186 Apache-2.0 29 22 1 Updated Feb 24, 2026
  • azure-blob Public Forked from testdouble/azure-blob

    Azure blob client and Active Storage adapter.

    phac-nml/azure-blob’s past year of commit activity
    Ruby 0 MIT 14 0 0 Updated Feb 24, 2026
  • legiovue Public

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

    phac-nml/legiovue’s past year of commit activity
    Nextflow 2 MIT 4 4 0 Updated Feb 20, 2026