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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 125 33

  2. staramr staramr Public

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

    Python 120 26

  3. ecoli_serotyping ecoli_serotyping Public

    In silico prediction of E. coli serotype

    Python 50 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 26 7

Repositories

Showing 10 of 144 repositories
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 9 Apache-2.0 3 12 11 Updated Dec 13, 2024
  • fastmatchirida Public

    Quickly refines a reference set of samples based on distance.

    phac-nml/fastmatchirida’s past year of commit activity
    HTML 1 MIT 0 0 0 Updated Dec 13, 2024
  • galaxy_tools Public

    Contains a set of Galaxy Tools mostly written by the Bioinformatics core at NML

    phac-nml/galaxy_tools’s past year of commit activity
    Perl 15 Apache-2.0 25 10 21 Updated Dec 13, 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 31 168 9 Updated Dec 13, 2024
  • staramr Public

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

    phac-nml/staramr’s past year of commit activity
    Python 120 Apache-2.0 26 18 0 Updated Dec 13, 2024
  • 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 5 0 Updated Dec 12, 2024
  • sequenoscope Public

    A set of tools designed for ONT sequencing analysis, enabling the exploration and comparison of sequencing outcomes across experimental conditions.

    phac-nml/sequenoscope’s past year of commit activity
    Python 5 1 0 0 Updated Dec 12, 2024
  • ecoli_serotyping Public

    In silico prediction of E. coli serotype

    phac-nml/ecoli_serotyping’s past year of commit activity
    Python 50 Apache-2.0 11 6 1 Updated Dec 12, 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 Dec 11, 2024
  • irida-uploader Public

    Sequence file uploader for IRIDA

    phac-nml/irida-uploader’s past year of commit activity
    Python 8 Apache-2.0 13 12 2 Updated Dec 11, 2024