cophenetic.haploNet: Cophenetic Matrix on Haplotype Networks
In pegas: Population and Evolutionary Genetics Analysis System

This function calculates the cophenetic distance on a network. The output can be used to find nodes with short distances to most nodes.

1 2	## S3 method for class 'haploNet' cophenetic(x)

`x`	an object of class `"haploNet"`.

The results of the function are likely to be approximate in most cases with reticulations in the network. In the case of MSTs, the results are exact.

a numeric matrix with colnames and rownames set to the labels of the network nodes.

Emmanuel Paradis

cophenetic.phylo in ape, cophenetic for the generic function

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example(mst)
coph <- cophenetic(r)
rowSums(coph)

pegas documentation built on Dec. 16, 2021, 5:09 p.m.

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