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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 142 32

  2. staramr staramr Public

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

    Python 142 28

  3. ecoli_serotyping ecoli_serotyping Public

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

    Python 54 11

  4. refseq_masher refseq_masher Public

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

    Jupyter Notebook 41 4

  5. irida irida Public

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

    Java 40 31

  6. sistr_cmd sistr_cmd Public

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

    Python 27 9

Repositories

Showing 10 of 155 repositories
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 9 Apache-2.0 3 16 13 Updated Apr 16, 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 4 0 Updated Apr 15, 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 Apr 15, 2025
  • genomic_address_service Public

    Package for clustering sequences de novo and assignment to existing nomenclature

    phac-nml/genomic_address_service’s past year of commit activity
    Python 1 Apache-2.0 4 15 3 Updated Apr 15, 2025
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 17 MIT 3 24 4 Updated Apr 15, 2025
  • snvphylnfc Public

    SNVPhyl nf-core Pipeline (Development)

    phac-nml/snvphylnfc’s past year of commit activity
    HTML 3 MIT 1 5 0 Updated Apr 14, 2025
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 1 5 0 Updated Apr 14, 2025
  • ArborView Public

    A way to visualize beautiful phylogenetic trees alongside contextual data.

    phac-nml/ArborView’s past year of commit activity
    HTML 1 0 1 1 Updated Apr 11, 2025
  • 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 1 0 Updated Apr 9, 2025
  • fastmatchirida Public

    Quickly refines a reference set of samples based on distance.

    phac-nml/fastmatchirida’s past year of commit activity
    Nextflow 1 MIT 0 0 0 Updated Apr 9, 2025

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