gather_groups

outbreak_clustering.gather_groups(clusters, prevalences, count_scores=None)

Greedily aggregate groups into meta-groups based on some heuristics.

Parameters

• clusters -- A tuple (U,V) of sets of root nodes representing clusters (from cluster_lineages).

• prevalences -- A map from lineage names to prevalences.

• count_scores -- Heuristic control prioritizing different meta-group sizes.

Returns

A list of lists clustering the clusters.