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upgma

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)

See Also

Examples

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

Phylogenetic Reconstruction and Analysis

v2.7.0
GPL (>= 2)
Authors
Klaus Schliep [aut, cre] (<https://orcid.org/0000-0003-2941-0161>), Emmanuel Paradis [aut] (<https://orcid.org/0000-0003-3092-2199>), Leonardo de Oliveira Martins [aut] (<https://orcid.org/0000-0001-5247-1320>), Alastair Potts [aut], Tim W. White [aut], Cyrill Stachniss [ctb], Michelle Kendall [ctb], Keren Halabi [ctb], Richel Bilderbeek [ctb], Kristin Winchell [ctb], Liam Revell [ctb], Mike Gilchrist [ctb], Jeremy Beaulieu [ctb], Brian O'Meara [ctb], Long Qu [ctb]
Initial release

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