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neighborNet

Computes a neighborNet from a distance matrix

Description

Computes a neighborNet, i.e. an object of class networx from a distance matrix.

Usage

neighborNet(x, ord = NULL)

Arguments

x

a distance matrix.
ord

a circular ordering.

Details

neighborNet is still experimental. The cyclic ordering sometimes differ from the SplitsTree implementation, the ord argument can be used to enforce a certain circular ordering.

Value

neighborNet returns an object of class networx.

Author(s)

References

Bryant, D. & Moulton, V. (2004) Neighbor-Net: An Agglomerative Method for the Construction of Phylogenetic Networks. Molecular Biology and Evolution, 2004, 21, 255-265

See Also

Examples

data(yeast)
dm <- dist.ml(yeast)
nnet <- neighborNet(dm)
plot(nnet, "2D")
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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