cophenetic.haploNet: Cophenetic Matrix on Haplotype Networks
In pegas: Population and Evolutionary Genetics Analysis System
cophenetic.haploNet R Documentation
Cophenetic Matrix on Haplotype Networks
Description
This function calculates the cophenetic distance on a network. The
output can be used to find nodes with short distances to most nodes.
Usage
## S3 method for class 'haploNet'
cophenetic(x)
Arguments
x
an object of class "haploNet".
Details
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.
Value
a numeric matrix with colnames and rownames set to the labels of the
network nodes.
Author(s)
Emmanuel Paradis
See Also
cophenetic.phylo in ape,
cophenetic for the generic function
Examples
example(mst)
coph <- cophenetic(r)
rowSums(coph)
pegas documentation built on May 29, 2024, 2:27 a.m.
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| cophenetic.haploNet | R Documentation |
Cophenetic Matrix on Haplotype Networks
Description
This function calculates the cophenetic distance on a network. The output can be used to find nodes with short distances to most nodes.
Usage
## S3 method for class 'haploNet'
cophenetic(x)
Arguments
x |
an object of class |
Details
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.
Value
a numeric matrix with colnames and rownames set to the labels of the network nodes.
Author(s)
Emmanuel Paradis
See Also
cophenetic.phylo in ape,
cophenetic for the generic function
Examples
example(mst)
coph <- cophenetic(r)
rowSums(coph)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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