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uboot
2007 Oct 10
2
Rooting trees using ape
...#39;ape' package in R
when it comes to rooting trees. Here's a short screenshot:
> nirK.tree
Phylogenetic tree with 23 tips and 21 internal nodes.
Tip labels:
Burkholder, Burkholde3, Burkholde1, Burkholde4, Burkholde5,
Ralstonia2, ...
Node labels:
, 100, 100, 100, 70, 91,...
Unooted; includes branch lengths.
> test<-root(nirk.tree, 4)
Error in root(nirk.tree, 4) : subscript out of bounds
> test<-root(nirk.tree, "Burkholde4")
Error in root(nirk.tree, "Burkholde4") : subscript out of bounds
>
I tried with the example tree provided in the...