distanceHadamard: Distance Hadamard
In phangorn: Phylogenetic Reconstruction and Analysis
distanceHadamard R Documentation
Distance Hadamard
Description
Distance Hadamard produces spectra of splits from a distance matrix.
Usage
distanceHadamard(dm, eps = 0.001)
Arguments
dm
A distance matrix.
eps
Threshold value for splits.
Value
distanceHadamard returns a matrix. The first column contains
the distance spectra, the second one the edge-spectra. If eps is positive an
object of with all splits greater eps is returned.
Author(s)
Klaus Schliep klaus.schliep@gmail.com, Tim White
References
Hendy, M. D. and Penny, D. (1993). Spectral Analysis of
Phylogenetic Data. Journal of Classification, 10, 5-24.
See Also
hadamard, lento,
plot.networx, neighborNet
Examples
data(yeast)
dm <- dist.hamming(yeast)
dm <- as.matrix(dm)
fit <- distanceHadamard(dm)
lento(fit)
plot(as.networx(fit))
phangorn documentation built on Jan. 23, 2023, 5:37 p.m.
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.
| distanceHadamard | R Documentation |
Distance Hadamard
Description
Distance Hadamard produces spectra of splits from a distance matrix.
Usage
distanceHadamard(dm, eps = 0.001)
Arguments
dm |
A distance matrix. |
eps |
Threshold value for splits. |
Value
distanceHadamard returns a matrix. The first column contains
the distance spectra, the second one the edge-spectra. If eps is positive an
object of with all splits greater eps is returned.
Author(s)
Klaus Schliep klaus.schliep@gmail.com, Tim White
References
Hendy, M. D. and Penny, D. (1993). Spectral Analysis of Phylogenetic Data. Journal of Classification, 10, 5-24.
See Also
hadamard, lento,
plot.networx, neighborNet
Examples
data(yeast) dm <- dist.hamming(yeast) dm <- as.matrix(dm) fit <- distanceHadamard(dm) lento(fit) plot(as.networx(fit))
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.