Skip to content

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

Popular repositories Loading

  1. Sanibel Sanibel Public

    FL BPHL's Nextflow pipeline for bacterial WGS quality control, identification, species typing and AMR detection

    Python 6 2

  2. Calusa Calusa Public

    An interactive tool for visualizing pathogen transmission networks from genomic sequence data

    HTML 3

  3. Daytona_combine Daytona_combine Public

    A combine of Daytona and Daytona_cl

    Nextflow 2 2

  4. 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

  5. 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

  6. 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

Repositories

Showing 10 of 43 repositories

Top languages

Loading…

Most used topics

Loading…