skbio.tree.TreeNode.compare_biparts#

TreeNode.compare_biparts(other, proportion=True, symmetric=True)[source]#

Calculate the difference of bipartitions between two trees.

Added in version 0.6.3.

Parameters:

otherTreeNode: The other tree to compare with.
proportionbool, optional: Whether to return count (False) or proportion (True, default) of different bipartitions.
symmetricbool, optional: Whether to calculate the symmetric difference between self and other (True, default), or only the difference from self to other (False).

Returns:

float: The count or proportion of bipartitions that differ between the trees.

See also

biparts
compare_rfd
compare_subsets

Notes

This metric is equivalent to the Robinson-Foulds distance on unrooted trees.

Only taxa shared between the two trees are considered.

Examples

>>> from skbio import TreeNode
>>> tree1 = TreeNode.read(["((a,b),(c,d));"])
>>> tree2 = TreeNode.read(["(((a,b),c),d);"])
>>> tree1.compare_biparts(tree2)
0.0