tool.cluster.static {Mergeomics} | R Documentation

## Static hierarchical clustering

### Description

`tool.cluster.static` takes dendrogram (clustering tree) and its cutting height; then, obtains cluster labels for the nodes of the tree.

### Usage

    tool.cluster.static(dendro, hlim)

### Arguments

`dendro` | dendrogram (tree)
`hlim` | cutting height of the dendrogram

### Value

`clusters` | cluster labels of the components after static clustering

### Author(s)

Ville-Petteri Makinen

### References

Shu L, Zhao Y, Kurt Z, Byars SG, Tukiainen T, Kettunen J, Orozco LD, Pellegrini M, Lusis AJ, Ripatti S, Zhang B, Inouye M, Makinen V-P, Yang X. Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems. BMC genomics. 2016;17(1):874.

### Examples

    set.seed(1)
    ## assume that we have a dataset including several samples
    ## with distinct features
    dataset <- matrix(rnorm(20), ncol=5) ## 4 samples with 5 features
    ## Find the distances between each sample pair to cluster them
    d <- dist(dataset, method = "euclidean", upper=TRUE, diag=TRUE)
    tree <- hclust(d)
    ## Height cutoff.
    hlim <- max(tree$height)
    ## Find clusters.
    clusters <- tool.cluster.static(tree, hlim)

[Package Mergeomics version 1.20.0 Index]