Sylva - sample code

from skbio.diversity import beta_diversity
from skbio import TreeNode
from io import StringIO


# int data = dataFrame.values.astype('float64')
# weighted_unifrac

data = [[23, 64, 14, 0, 0, 3, 1],
         [0, 3, 35, 42, 0, 12, 1],
         [0, 5, 5, 0, 40, 40, 0],
         [44, 35, 9, 0, 1, 0, 0],
         [0, 2, 8, 0, 35, 45, 1],
         [0, 0, 25, 35, 0, 19, 0]]
ids = list('ABCDEF')
tree = TreeNode.read(StringIO(
                      '(((((OTU1:0.5,OTU2:0.5):0.5,OTU3:1.0):1.0):0.0,'
                      '(OTU4:0.75,(OTU5:0.5,(OTU6:0.5,OTU7:0.5):0.5):'
                      '0.5):1.25):0.0)root;'))
otu_ids = ['OTU1', 'OTU2', 'OTU3', 'OTU4', 'OTU5', 'OTU6', 'OTU7']

wu_dm = beta_diversity("weighted_unifrac", data, ids, tree=tree, otu_ids=otu_ids)
print(wu_dm)