Beta diversity measures (skbio.diversity.beta)

This package provides implementations of beta diversity measures for computing sample dissimilarity. Users should also explore SciPy’s pdist, which provides implementations of additional beta diversity metrics with interfaces similar to those provided here, and can be directly used in the driver function beta_diversity.

Functions

unweighted_unifrac(u_counts, v_counts, taxa, ...)	Compute unweighted UniFrac.
weighted_unifrac(u_counts, v_counts, taxa, tree)	Compute weighted UniFrac with or without branch length normalization.