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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 124 33

  2. staramr staramr Public

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

    Python 117 26

  3. ecoli_serotyping ecoli_serotyping Public

    In silico prediction of E. coli serotype

    Python 49 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 39 4

  6. biohansel biohansel Public

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

    Python 26 7

Repositories

Showing 10 of 142 repositories
  • viralassembly Public

    Assemble and QC viral reads with a reference scheme

    phac-nml/viralassembly’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Nov 25, 2024
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 8 Apache-2.0 3 13 12 Updated Nov 25, 2024
  • 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 31 167 14 Updated Nov 25, 2024
  • sistr_cmd Public

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

    phac-nml/sistr_cmd’s past year of commit activity
    Python 25 Apache-2.0 9 11 (1 issue needs help) 0 Updated Nov 22, 2024
  • fetchdatairidanext Public

    Pipeline for downloading data from INSDC databases for IRIDA Next.

    phac-nml/fetchdatairidanext’s past year of commit activity
    Nextflow 0 MIT 1 2 0 Updated Nov 22, 2024
  • 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 2 10 3 Updated Nov 22, 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 20 1 Updated Nov 22, 2024
  • 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 Nov 21, 2024
  • neptune Public

    Neptune: Genomic Signature Discovery

    phac-nml/neptune’s past year of commit activity
    Python 18 Apache-2.0 7 2 0 Updated Nov 20, 2024
  • ArborView Public

    A way to visualize beautiful phylogenetic trees alongside contextual data.

    phac-nml/ArborView’s past year of commit activity
    HTML 0 0 1 1 Updated Nov 19, 2024