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@phac-nml

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 134 32

  2. staramr staramr Public

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

    Python 130 28

  3. ecoli_serotyping ecoli_serotyping Public

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

    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. biohansel biohansel Public

    Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes

    Python 27 7

Repositories

Showing 10 of 146 repositories
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 15 MIT 2 22 3 Updated Feb 7, 2025
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 9 Apache-2.0 3 15 8 Updated Feb 7, 2025
  • ncov2019-artic-nf Public Forked from connor-lab/ncov2019-artic-nf

    A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019

    phac-nml/ncov2019-artic-nf’s past year of commit activity
    Python 2 AGPL-3.0 88 2 1 Updated Feb 7, 2025
  • locidex Public

    Common search engine for similarity based typing applications

    phac-nml/locidex’s past year of commit activity
    Python 4 MIT 0 13 0 Updated Feb 7, 2025
  • viralassembly Public

    Assemble and QC viral reads with a reference scheme

    phac-nml/viralassembly’s past year of commit activity
    Nextflow 0 MIT 1 0 1 Updated Feb 7, 2025
  • phac-nml/metadatatransformation’s past year of commit activity
    Nextflow 0 MIT 0 0 1 Updated Feb 7, 2025
  • 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 5 0 0 Updated Feb 6, 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 31 169 8 Updated Feb 6, 2025
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 1 5 2 Updated Feb 6, 2025
  • gasclustering Public
    phac-nml/gasclustering’s past year of commit activity
    Nextflow 0 MIT 0 2 0 Updated Feb 4, 2025

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