RootTree() roots a tree on the smallest clade containing the specified
tips;
RootOnNode() roots a tree on a specified internal node;
UnrootTree() collapses a root node, without the undefined behaviour
encountered when using ape::unroot() on trees in
preorder.
Usage
RootTree(tree, outgroupTips)
RootOnNode(tree, node, resolveRoot = FALSE)
UnrootTree(tree)
Arguments
tree
A tree of class phylo, or a list of trees
of class list or multiPhylo.
outgroupTips
Vector of type character, integer or logical, specifying
the names or indices of the tips to include in the outgroup.
node
integer specifying node (internal or tip) to set as the root.
resolveRoot
logical specifying whether to resolve the root node.
Value
RootTree() returns a tree of class phylo, rooted on the smallest
clade that contains the specified tips, with edges and nodes numbered in
preorder.
RootOnNode() returns a tree of class phylo, rooted on the
requested node and ordered in Preorder.
UnrootTree() returns tree, in preorder,
having collapsed the first child of the root node in each tree.