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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 2 1

  2. illumina-uploader illumina-uploader Public

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

    Python 2 1

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

    Python 1

  4. covid-qc covid-qc Public

    Static site for displaying COVID-19 sequencing quality control data

    Clojure 3

Repositories

Showing 10 of 116 repositories
  • fluviewer-nf Public

    Nextflow pipeline for influenza A whole genome sequence analysis

    BCCDC-PHL/fluviewer-nf’s past year of commit activity
    Nextflow 0 0 4 1 Updated Jul 3, 2024
  • FluViewer Public Forked from KevinKuchinski/FluViewer

    Tool for generating influenza A virus genome sequences from FASTQ data

    BCCDC-PHL/FluViewer’s past year of commit activity
    Python 4 3 4 0 Updated Jul 3, 2024
  • tbprofiler-nf Public

    Nextflow Wrapper for TBProfiler

    BCCDC-PHL/tbprofiler-nf’s past year of commit activity
    Python 4 2 2 0 Updated Jul 2, 2024
  • symlink-seqs Public

    Create fastq symlinks for selected samples in sequencer output directories based on several criteria

    BCCDC-PHL/symlink-seqs’s past year of commit activity
    Python 0 0 2 0 Updated Jun 24, 2024
  • kma-cgmlst Public

    A cgMLST pipeline based on the KMA aligner

    BCCDC-PHL/kma-cgmlst’s past year of commit activity
    Nextflow 3 MIT 1 4 1 Updated Jun 21, 2024
  • plasmid-screen Public

    Screen plasmids for carbapenemase resistance genes, and classify using MOB Suite

    BCCDC-PHL/plasmid-screen’s past year of commit activity
    Python 1 0 4 0 Updated Jun 21, 2024
  • alignment-variants Public

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

    BCCDC-PHL/alignment-variants’s past year of commit activity
    Nextflow 0 0 1 1 Updated Jun 19, 2024
  • auto-hcv Public

    Automated genomic analysis of HCV sequence data

    BCCDC-PHL/auto-hcv’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Jun 14, 2024
  • 16s-nf Public

    Prepare a report for taxonomic assignment based on 16S rRNA sequences, using BLAST.

    BCCDC-PHL/16s-nf’s past year of commit activity
    Python 2 0 0 0 Updated Jun 14, 2024
  • noro-typing-nf Public

    Norovirus metagenomics Nextflow pipeline

    BCCDC-PHL/noro-typing-nf’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jun 10, 2024
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