This function takes the given tree object and returns a string
representing the tree in the requested format. The difference between
the "newick"
and "newick.named"
formats is that the
former uses only node numbers in its output, whereas the latter uses
the tip labels (sanitized and deduplicated if necessary).
print_annotated(tree, format="nexus")
a phylogentic tree, with optional annotations
a format specifier; either "nexus"
,
"newick"
, or "newick.named"
a string containing a serialized tree.
The tree object should be either a "phylo"
or
"multiPhylo"
object. It may optionally be augmented with
annotations, as described in the documentation for the
parse_annotated
function.
The output is a string suitable for writing to a file.