Create a subtree by specifying tips to keep.
Arguments
- tree
A phylo object, as returned from
read_tree()
.- tips
A character, numeric, or logical vector of tips to keep.
See also
Other phylogeny:
read_tree()
Examples
library(rbiom)
infile <- system.file("extdata", "newick.tre", package = "rbiom")
tree <- read_tree(infile)
tree
#>
#> Phylogenetic tree with 20 tips and 19 internal nodes.
#>
#> Tip labels:
#> Pa5Bac29, AtlPorci, AciSp313, MxlBact8, MxlBacte, PseS1107, ...
#>
#> Rooted; includes branch lengths.
subtree <- tree_subset(tree, tips = head(tree$tip.label))
subtree
#>
#> Phylogenetic tree with 6 tips and 5 internal nodes.
#>
#> Tip labels:
#> Pa5Bac29, AtlPorci, AciSp313, MxlBact8, MxlBacte, PseS1107
#>
#> Rooted; includes branch lengths.