Using R How would you create a random tree with 5 tips and save it in an object

Question

Using R

How would you create a random tree with 5 tips and save it in an object called "Myrandomtree"?

B. How would you plot the tree you just made ?

C. How would you create a vector with the names of 5 colors in it? Name the vector "Mycolors."

D. To add large colored tips to your ggtree plot, you use the ggtree function and then add a line that looks like this. "+geom_tippoint(color=vectorofcolors, size=10)"

Now write the code here that makes the ggtree plot, and adds colored tips with the colors in your vector Mycolors. I also want you to make the size of the tips 2x larger than in my example.

Explanation / Answer

library("ape")
tree <- read.tree("tree.mod")
tree$edge
#     [,1] [,2]
#[1,]    5    6 # root -> a:b
#[2,]    6    1 # == "a"
#[3,]    6    2 # == "b"
#[4,]    5    7 # root -> c:d
#[5,]    7    3 # == "c"
#[6,]    7    4 # == "d"
cols <- rep(c("blue", "red"), each=3)
plot.phylo(tree, edge.col=cols)



[Inline image 1]
ntips <- length(tree$tip.label)
cols <- c(rainbow(ntips), rep("black", nrow(tree$edge)-ntips+1))
plot.phylo(tree, edge.col=cols[tree$edge[,2]])
                 

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