Getting started with analysis

The starting point for this section is a FASTA file with sequence data + a TSV file with metadata. You can alternately use our example data to start.

Table of contents

• Setup and installation
• Preparing your data
• Orientation: so, what does Nextstrain do?
• Overview of this repository (i.e., what do these files do?)
• Running the analysis
• Customizing analysis
• Customizing your Auspice visualization