Nextstrain build for novel coronavirus SARS-CoV-2
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Guidance for interpretation

Introductory resources

  • Visual explanation of how viral mutations and spread are related:

  • Introduction to interpreting phylogenetic trees:

  • How to interact with auspice (the engine for viewing trees):

  • Overview of genomic epidemiology (older, but still relevant and clear):

Case Studies

  • UCSF-led analysis of genomic epi in California:

  • UK analysis of hospital-acquired infections:

  • UK’s analysis of coronavirus introductions:

  • Australia cluster detection:

  • Nextstrain situation reports: