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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 4

Repositories

Showing 10 of 121 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 Jan 16, 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 7 4 Updated Jan 14, 2025
  • basic-sequence-qc Public

    Generate some basic quality control statistics on an arbitrary set of illumina fastq sequence files.

    BCCDC-PHL/basic-sequence-qc’s past year of commit activity
    Python 1 MIT 0 1 0 Updated Dec 18, 2024
  • snippy-core-phylogenomics Public
    BCCDC-PHL/snippy-core-phylogenomics’s past year of commit activity
    Nextflow 1 2 4 1 Updated Dec 5, 2024
  • tbprofiler-nf Public

    Nextflow Wrapper for TBProfiler

    BCCDC-PHL/tbprofiler-nf’s past year of commit activity
    Python 4 2 4 1 Updated Dec 4, 2024
  • taxon-abundance Public
    BCCDC-PHL/taxon-abundance’s past year of commit activity
    Python 5 1 7 0 Updated Dec 4, 2024
  • 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 Dec 2, 2024
  • plasmid-assembly Public
    BCCDC-PHL/plasmid-assembly’s past year of commit activity
    Nextflow 0 MIT 0 3 0 Updated Nov 8, 2024
  • snippy-variants Public

    Perform read mapping and variant calling using snippy

    BCCDC-PHL/snippy-variants’s past year of commit activity
    Nextflow 0 1 4 3 Updated Nov 4, 2024
  • mpxv-artic-nf Public
    BCCDC-PHL/mpxv-artic-nf’s past year of commit activity
    Nextflow 2 4 1 0 Updated Oct 30, 2024
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