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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 118 31

  2. staramr staramr Public

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

    Python 116 26

  3. ecoli_serotyping ecoli_serotyping Public

    In silico prediction of E. coli serotype

    Python 48 10

  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 138 repositories
  • irida-next Public

    IRIDA Next

    phac-nml/irida-next’s past year of commit activity
    Ruby 8 Apache-2.0 3 10 5 Updated Sep 25, 2024
  • speciesabundance Public

    Estimate the relative abundance of sequence reads originating from different species in a sample.

    phac-nml/speciesabundance’s past year of commit activity
    Nextflow 5 MIT 0 0 1 Updated Sep 24, 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 8 1 Updated Sep 24, 2024
  • mikrokondo Public

    A simple pipeline for bacterial assembly and quality control

    phac-nml/mikrokondo’s past year of commit activity
    Nextflow 11 MIT 2 11 1 Updated Sep 24, 2024
  • snvphylnfc Public

    SNVPhyl nf-core Pipeline (Development)

    phac-nml/snvphylnfc’s past year of commit activity
    Nextflow 3 MIT 1 4 0 Updated Sep 23, 2024
  • sistr_cmd Public

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

    phac-nml/sistr_cmd’s past year of commit activity
    Python 24 Apache-2.0 9 11 (1 issue needs help) 0 Updated Sep 23, 2024
  • 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 1 Updated Sep 23, 2024
  • gasnomenclature Public

    Nomenclature assignment pipeline

    phac-nml/gasnomenclature’s past year of commit activity
    Nextflow 0 MIT 0 1 1 Updated Sep 23, 2024
  • arboratornf Public

    EPS suite Arborator pipeline

    phac-nml/arboratornf’s past year of commit activity
    HTML 0 MIT 0 3 1 Updated Sep 23, 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 0 1 Updated Sep 20, 2024