This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

About this instance

This is a prototype of a database for sharing genomic data from SARS-CoV-2 wastewater surveillance. Everyone can browse, search and download the data without an account; submitting data requires an account.

Each sample consists of metadata and one of two kinds of genomic data:

  1. Aligned reads: one BAM file.
  2. SNV frequencies and depth per site: one VCF file and one tab-separated depth file.

The pages in this documentation describe:

  • Genomic data: what exactly to upload for each of the two options, with examples.
  • Metadata: the PHA4GE wastewater specification the metadata follow.
  • Processing: how each sample is checked and analyzed after upload, including the lineage prevalence estimation.
  • Test datasets: two example datasets with real reads and fictional metadata.