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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 121 repositories
  • 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 25, 2025
  • auspice-docker Public
    BCCDC-PHL/auspice-docker’s past year of commit activity
    Dockerfile 0 0 0 0 Updated Jan 24, 2025
  • alignment-variants Public

    Pipeline to perform alignment & variant calling on whole-genome sequence data

    BCCDC-PHL/alignment-variants’s past year of commit activity
    Python 0 0 0 0 Updated Jan 23, 2025
  • routine-nanopore-qc-collector Public

    Collect Routine QC for Nanopore Sequence Data

    BCCDC-PHL/routine-nanopore-qc-collector’s past year of commit activity
    Python 0 0 0 0 Updated Jan 23, 2025
  • auto-routine-nanopore-qc Public
    BCCDC-PHL/auto-routine-nanopore-qc’s past year of commit activity
    Python 0 0 0 0 Updated Jan 23, 2025
  • simulate-long-reads Public

    Generate simulated oxford nanopore reads from a reference sequence

    BCCDC-PHL/simulate-long-reads’s past year of commit activity
    Nextflow 4 1 0 0 Updated Jan 22, 2025
  • 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
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