A practical introduction to viral phylogenetics

Exercises

Section 4: CovSpectrum

CovSpectrum is a website that allows you to see trends in the numbers of viruses carrying particular mutations, or from particular lineages.

Click here to open CovSpectrum, with the search set to show a time period from early 2020.

Question: What is the trend in this period for S:D614G?

You can also try extending the time period to see further trends.


Let’s jump to the present day.

Question: Use CovSpectrum to find out about the dynamics of `JN.1*` in the UK in recent months. What is the estimate for its growth advantage?
Question: Why do you think the growth trajectory has the shape that it does?