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@BCCDC-PHL

BC Centre for Disease Control Public Health Laboratory

The BCCDC Public Health Laboratory is the primary public health and reference diagnostic testing facility for British Columbia.

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  1. ncov2019-artic-nf ncov2019-artic-nf Public

    Forked from connor-lab/ncov2019-artic-nf

    A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019

    Nextflow 3 1

  2. illumina-uploader illumina-uploader Public

    Watch for new files in Illumina sequencer and upload to remote server

    Python 3 1

  3. mpxv-artic-nf mpxv-artic-nf Public

    Nextflow 2 4

  4. covid-qc covid-qc Public

    Static site for displaying COVID-19 sequencing quality control data

    Clojure 5

Repositories

Showing 10 of 122 repositories
  • routine-assembly Public

    Pipeline for performing routine genome assembly

    BCCDC-PHL/routine-assembly’s past year of commit activity
    Nextflow 1 1 4 1 Updated Feb 14, 2025
  • fluviewer-nf Public

    Nextflow pipeline for influenza A whole genome sequence analysis

    BCCDC-PHL/fluviewer-nf’s past year of commit activity
    Nextflow 0 1 6 2 Updated Feb 14, 2025
  • amplicone Public
    BCCDC-PHL/amplicone’s past year of commit activity
    Python 0 MIT 1 1 0 Updated Feb 13, 2025
  • bioinflow Public

    Nextflow pipeline for providing public health bioinfo.

    BCCDC-PHL/bioinflow’s past year of commit activity
    Nextflow 5 MIT 0 0 0 Updated Feb 12, 2025
  • kma-cgmlst Public

    A cgMLST pipeline based on the KMA aligner

    BCCDC-PHL/kma-cgmlst’s past year of commit activity
    Nextflow 4 MIT 2 3 0 Updated Feb 4, 2025
  • cgmlst-clustering Public

    Scripts to support clustering of cgMLST allele profiles

    BCCDC-PHL/cgmlst-clustering’s past year of commit activity
    C 3 MIT 0 0 0 Updated Feb 4, 2025
  • fluflo Public

    Nextflow pipeline for generation of phylogenetic trees to be visualized in Auspice.

    BCCDC-PHL/fluflo’s past year of commit activity
    Nextflow 8 GPL-3.0 4 0 0 Updated Feb 1, 2025
  • auspice Public Forked from nextstrain/auspice

    Web app for visualizing pathogen evolution

    BCCDC-PHL/auspice’s past year of commit activity
    JavaScript 0 AGPL-3.0 168 0 0 Updated Jan 30, 2025
  • WasteFlow Public

    Nextflow pipeline for pathogen surveillance in wastewater

    BCCDC-PHL/WasteFlow’s past year of commit activity
    Nextflow 5 GPL-3.0 1 0 0 Updated Jan 27, 2025
  • auspice-docker Public
    BCCDC-PHL/auspice-docker’s past year of commit activity
    Dockerfile 0 0 0 0 Updated Jan 24, 2025
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