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USEARCH v11

Sequence, tree and graph-based clustering

  closed_ref  Make OTU table using closed-reference clustering
  cluster_aggd  Cluster distance matrix using agglomerative clustering
  cluster_edges  Find connected components of graph (single-linkage clustering)
  cluster_fast  Cluster sequences using UCLUST
  cluster_otus  Cluster sequences using UPARSE
  cluster_smallmem  Cluster sequencees using UCLUST
  cluster_tree  Construct clusters from tree using distance cutoff