Implements the tree comparison metric of Nye et al. (2006).
NyeTreeSimilarity(tree1, tree2, reportMatching = FALSE)NyeSplitSimilarity(splits1, splits2, reportMatching = FALSE)
Trees of class phylo, with tips labelled identically,
or lists of such trees to undergo pairwise comparison.
Trees of class phylo, with tips labelled identically,
or lists of such trees to undergo pairwise comparison.
Logical specifying whether to return the clade matchings as an attribute of the score.
Logical matrices where each row corresponds to a terminal,
either listed in the same order or bearing identical names (in any sequence),
and each column corresponds to a bipartition split, such that
each terminal is identified as a member of the ingroup (TRUE) or outgroup
(FALSE) of the respective bipartition split.
Logical matrices where each row corresponds to a terminal,
either listed in the same order or bearing identical names (in any sequence),
and each column corresponds to a bipartition split, such that
each terminal is identified as a member of the ingroup (TRUE) or outgroup
(FALSE) of the respective bipartition split.
NyeSplitSimilarity: Takes splits instead of trees
Nye2006TreeSearch