phangorn (version 2.11.1)

upgma: UPGMA and WPGMA

Description

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

Usage

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

Value

A phylogenetic tree of class phylo.

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.

Author

Klaus Schliep

See Also

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

Examples

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