upgma: UPGMA and WPGMA

In phangorn: Phylogenetic Reconstruction and Analysis

UPGMA and WPGMA

Description

UPGMA and WPGMA clustering. Just a wrapper function around hclust.

Usage

upgma(D, method = "average", ...)

wpgma(D, method = "mcquitty", ...)

Arguments

D	A distance matrix.
method	The agglomeration method to be used. This should be (an unambiguous abbreviation of) one of "ward", "single", "complete", "average", "mcquitty", "median" or "centroid". The default is "average".
...	Further arguments passed to or from other methods.

Value

A phylogenetic tree of class phylo.

Author(s)

Klaus Schliep [e-mail]

See Also

hclust, dist.hamming, NJ, as.phylo, fastme, nnls.tree

Examples

data(Laurasiatherian)
dm <- dist.ml(Laurasiatherian)
tree <- upgma(dm)
plot(tree)

phangorn documentation built on Jan. 23, 2023, 5:37 p.m.