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WGCNA (version 1.43)

cutreeStatic: 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.

Value

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

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.

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.