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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 141 28

  2. mob-suite mob-suite Public

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

    Python 140 32

  3. ecoli_serotyping ecoli_serotyping Public

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

    Python 52 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 148 repositories
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 9 Apache-2.0 3 15 10 Updated Mar 19, 2025
  • pangwas Public

    A pipeline for pangenome wide association studies (panGWAS).

    phac-nml/pangwas’s past year of commit activity
    Python 1 Apache-2.0 0 2 0 Updated Mar 18, 2025
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 1 3 1 Updated Mar 18, 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 Mar 17, 2025
  • phac-nml/metadatatransformation’s past year of commit activity
    Nextflow 0 MIT 0 1 0 Updated Mar 17, 2025
  • 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 Mar 17, 2025
  • pangonet Public

    Create and manipulate SARS-CoV-2 pango lineages in a phylogenetic network.

    phac-nml/pangonet’s past year of commit activity
    Python 1 Apache-2.0 0 2 0 Updated Mar 17, 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 Mar 17, 2025
  • arboratornf Public

    EPS suite Arborator pipeline

    phac-nml/arboratornf’s past year of commit activity
    Nextflow 0 MIT 0 3 1 Updated Mar 17, 2025
  • gasclustering Public
    phac-nml/gasclustering’s past year of commit activity
    Nextflow 0 MIT 0 3 0 Updated Mar 17, 2025