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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 pa...