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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 123 repositories
  • downsample-reads Public

    Downsample fastq reads for mutiple samples, at multiple depths

    BCCDC-PHL/downsample-reads’s past year of commit activity
    Nextflow 0 1 2 0 Updated Mar 6, 2025
  • mlst-nf Public

    Run mlst on multiple samples with integrated quality control.

    BCCDC-PHL/mlst-nf’s past year of commit activity
    Nextflow 1 0 3 1 Updated Mar 5, 2025
  • routine-assembly Public

    Pipeline for performing routine genome assembly

    BCCDC-PHL/routine-assembly’s past year of commit activity
    Nextflow 1 1 2 0 Updated Mar 4, 2025
  • tbprofiler-nf Public

    Nextflow Wrapper for TBProfiler

    BCCDC-PHL/tbprofiler-nf’s past year of commit activity
    Python 4 2 4 1 Updated Mar 3, 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 Mar 1, 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 4 0 Updated Feb 27, 2025
  • routine-nanopore-qc Public

    Routine sequence QC for nanopore data

    BCCDC-PHL/routine-nanopore-qc’s past year of commit activity
    Nextflow 0 0 1 1 Updated Feb 26, 2025
  • roary-nf Public
    BCCDC-PHL/roary-nf’s past year of commit activity
    Nextflow 0 0 0 0 Updated Feb 22, 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
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