Nextstrain.org is an open-source project to harness the scientific and public health potential of pathogen genome data. The data.nextstrain.org site (this page) houses two types of data files:
Core pathogen analyses
We maintain continually updated views of a range of pathogens, and the data files (JSONs) are housed on data.nextstrain.org. The link above lists all of the analyses maintained by Nextstrain, including the ability to access snapshots of previous analyses.
Intermediate data files
Curated metadata (TSV) and sequences (FASTA) files which are created by our workflows as part of the analyses. The link above lists the latest versions of these files as well as providing a window into the history of the file uploads across time.