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@BPHL-Molecular

BPHL-Molecular

README.md

Florida BPHL's Bioinformatics pipelines and various code

  • 👋 Hi, we're a group of bioinformaticians and data analysts at Florida's Bureau of Public Health Laboratories!
  • 👩‍💻 We are active members of StaPH-B and use many of the StaPH-B resources and docker builds for our pipelines!
  • 🌱 We are currently in the process of updating all our pipelines to Nextflow
  • 💞️ We are always interested to collaborate on public health bioinformatics tools and workflows for the investigation of infectious diseases.
  • 📫 How to reach us: bphl-sebioinformatics@flhealth.gov

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  1. Sanibel Sanibel Public

    A Nextflow pipeline to analyze NGS data in fastq format from bacterial genome

    Nextflow 5 1

  2. Daytona_combine Daytona_combine Public

    A combine of Daytona and Daytona_cl

    Nextflow 2 2

  3. data_visualization_R_scripts data_visualization_R_scripts Public

    Various R scripts and notebooks with example code for tree and other data visualizations

    R 1 1

  4. Talbot Talbot Public

    A Nextflow pipeline for pan genome analyses including phylogenic tree. The pipeline is a upgraded version of the pipeline fl_cg_snp.

    Nextflow 1

  5. data_submission_scripts data_submission_scripts Public

    Accessory scripts to facilitate fastq and assembly data prep for submissions to NCBI and other public repositories

    Python 1 1

  6. Pensacola Pensacola Public

    A Nextflow pipeline to analyze NGS data of Candida auris from PacBio

    Perl 1 1

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