cutreeStatic {WGCNA}

Constant-height tree cut

Description

Module detection in hierarchical dendrograms using a constant-height tree cut. Only branches whose size is at least minSize are retained.

Usage

cutreeStatic(dendro, cutHeight = 0.9, minSize = 50)

Arguments

dendro

a hierarchical clustering dendrogram such as returned by hclust.

cutHeight

height at which branches are to be cut.

minSize

minimum number of object on a branch to be considered a cluster.

Details

This function performs a straightforward constant-height cut as implemented by cutree, then calculates the number of objects on each branch and only keeps branches that have at least minSize objects on them.

Value

A numeric vector giving labels of objects, with 0 meaning unassigned. The largest cluster is conventionally labeled 1, the next largest 2, etc.

Author(s)

Peter Langfelder

See Also

hclust for hierarchical clustering, cutree and cutreeStatic for other constant-height branch cuts, standardColors to convert the retuned numerical lables into colors for easier visualization.