Mergeomics (version 1.0.0)

tool.cluster.static: 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

References

Shu L, Zhao Y, Kurt Z, Byars S, Tukiainen T, Kettunen J, Ripatti S, Zhang B, Inouye M, Makinen VP, Yang X. Mergeomics: integration of diverse genomics resources to identify pathogenic perturbations to biological systems. bioRxiv doi: http://dx.doi.org/10.1101/036012

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)