Data preparation guide

To use Nextstrain to analyze your own data, you’ll need to prepare two files:

  1. A FASTA file with viral genomic sequences

  2. A corresponding TSV file with metadata describing each sequence

We describe the following ways to prepare data for a SARS-CoV-2 analysis:

Alternatively, use pre-curated data files:

  1. Nextstrain remote inputs

  2. CDC: US State and Territory subsample datasets and example builds