tool.cluster.static: Static hierarchical clustering

Description Usage Arguments Value Author(s) References Examples

View source: R/cle.LS.R

Description

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

Usage

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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

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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)

Mergeomics documentation built on Nov. 8, 2020, 6:58 p.m.