Cluster tree – cluster type

This it the type of hierarchical clustering algorithm used for generating initial tree. Should be one of

• single single linke clustering
• average average link clustering
• complete complete link clustering
• upgma unweighted pair group method with arithmetic mean (UPGMA), equals average link clustering
• mean mean link clustering
• centroid centroid link clustering
• ward measures increase in variance
• adjcomplete adjusted complete link
• neighborjoining neighbour joining algorithm
• neighborjoining2 corrects tree for tip data, unlike plain neighborjoining

The default average is the same as upgma.

See also hierarchical clustering, UPGMA, neighbour joining.