extendGraphClust: Extend clusters to new species using a phylogenetic tree
In fkeck/diatobc: Bioinformatic toolbox for my projects
Description
Usage
Arguments
Details
Value
Description
This function affiliate new species to clusters of a graphclust object.
This is done using a phylogeny including both the species included in the graphclust
object and the set of new species to affiliate.
Usage
1
extendGraphClust(clusters, target, pb = TRUE)
Arguments
clusters
an object of class graphclust
target
a phylo object
pb
a logical. Should a progress bar be printed? (default TRUE).
Details
The affiliation algorithm is basic and works with phylogenetic distance as number of nodes between two tips.
It may produce NA values in case of ambiguity between two clusters.
Affliliation of a large number of new tips can be slow.
Value
A vector giving the cluster of each tip.
fkeck/diatobc documentation built on May 12, 2019, 7:18 p.m.
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Description Usage Arguments Details Value
Description
This function affiliate new species to clusters of a graphclust object.
This is done using a phylogeny including both the species included in the graphclust
object and the set of new species to affiliate.
Usage
1 | extendGraphClust(clusters, target, pb = TRUE)
|
Arguments
clusters |
an object of class |
target |
a |
pb |
a logical. Should a progress bar be printed? (default TRUE). |
Details
The affiliation algorithm is basic and works with phylogenetic distance as number of nodes between two tips.
It may produce NA values in case of ambiguity between two clusters.
Affliliation of a large number of new tips can be slow.
Value
A vector giving the cluster of each tip.
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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