12.6 Setup

In the rest of this module we’ll place SARS-CoV-2 on a phylogeny of 24 distantly related coronavirus sequences (SARS, MERS, etc.) from both human and animal hosts.

12.6.1 R packages

We’ll use ape for phylogenetics, ggtree for plotting trees, and harrietr for data transformation.

library(tidyverse)
library(ape)
library(ggtree)
library(harrietr)

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