skbio.tree.TreeNode.compare_subsets#

TreeNode.compare_subsets(other, exclude_absent_taxa=False)[source]#

Return fraction of overlapping subsets where self and other differ.

Names present in only one of the two trees will count as mismatches, if you don’t want this behavior, strip out the non-matching tips first.

Parameters:

otherTreeNode: The tree to compare
exclude_absent_taxabool: Strip out names that don’t occur in both trees

Returns:

float: The fraction of overlapping subsets that differ between the trees

See also

compare_rfd
compare_tip_distances
subsets

Examples

>>> from skbio import TreeNode
>>> tree1 = TreeNode.read(["((a,b),(c,d));"])
>>> tree2 = TreeNode.read(["(((a,b),c),d);"])
>>> tree1.compare_subsets(tree2)
0.5