hcluster: hcluster

In cbsteen/clustermap: clustermap: a Versatile Toolbox in R for Clustering and Heatmap Visualisation

Description

Performs hierarchical clustering of a data matrix X. To cluster both rows and columns, call it twice with clust="col"and clust="row" respectively. The option reorder=TRUE leads to a nice arrangement of the clusters from left to right to ensure neighbors are similar to each other.

Usage

hcluster(X, clust = "col", distance = "euclidean", linkage = "complete",
  reorder = T, ncomp = NA)

Arguments

X	matrix
clust	String. Perform clustering of rows or columns, can be by column: "col" (default) or by row: "row".
distance	String. Distance measure for hierarchical clustering, can be"euclidean" (default), "pearson", "spearman".
linkage	String. Method for clusterting, can be "complete" (default), "average", "single", "ward".
reorder	Boolean. When TRUE, arranges the clustered items in optimized order.
ncomp	Integer. Default NA. If set to integer k, only the first k principal components are used in clustering

cbsteen/clustermap documentation built on May 24, 2019, 1:35 a.m.