This repository aims to serve as a base to future works on genomic and epidemiological dashboards
Create your metadata based on the the structure of data/template_metadata.csv and save as ./data/<pathogen>/metadata.csv
For example, if you are working with Dengue, save your metadata on data/dengue/metadata.csv
- Make sure you have Docker installed. For more information access: https://docs.docker.com/engine/install/
- Open the terminal (comand line) inside the folder where the dockerfile is located.
- Build the image:
docker build -t genomic-dashboard . - Run the Docker container:
docker run -p 8511:8511 --name genomic-dashboard -d genomic-dashboard . - You can view your Dashboard in your browser URL: http://0.0.0.0:8511
In this workshop we show how to use VIPR database and Genome Detective to generate a DENV-1 dataset from Dengue in Africa, and how to build a dashboard with the Dengue data using the Patho Track Framework.
Xavier, J.S., Moir, M., Tegally, H. et al. SARS-CoV-2 Africa dashboard for real-time COVID-19 information. Nat Microbiol 8, 1–4 (2023). https://doi.org/10.1038/s41564-022-01276-9.
If you have any question please get in touch with us through the following e-mail address: