Home Software Services About Contact usearch manual
tree2clusters command

The tree2clusters command creates from a tree in Newick format, which must have branch lengths specified. Branch lengths must be specified as 1.0 – (fractional sequence identity).

Clusters are created based on an identity cutoff, which is specified by the -id option.

Output is to a tabbed text file specified by the -clusterout option. Fields are cluster_number and label.


usearch -tree2clusters tree,phy -id 0.95 -clusterout clusters.txt