findModules.hclust: Find Modules with Hierarchical Clustering

In Sage-Bionetworks/metanetwork: Network meta analysis

Find Modules with Hierarchical Clustering

Description

This function finds modules from Hierarchical Clustering 'fastcluster::hclust.vector()'

Usage

findModules.hclust(
  adj,
  aggloMethod = "ward",
  clustDistance = "euclidean",
  minModuleSize = 30
)

Arguments

adj	Required. A n x n upper triangular adjacency in the matrix class format.
aggloMethod	Optional. The agglomeration method to be used. This must be (an unambiguous abbreviation of) one of "single", "ward", "centroid" or "median". (Default = "ward")
clustDistance	Optional. The distance measure to be used. This must be one of "euclidean", "maximum", "manhattan", "canberra", "binary" or "minkowski". Any unambiguous substring can be given. (Default = "euclidean")
minModuleSize	Optional. Integer between 1 and n genes. (Default = 30)

Value

GeneModules = n x 3 dimensional data frame with column names as Gene.ID, moduleNumber, and moduleLabel.

Sage-Bionetworks/metanetwork documentation built on April 27, 2022, 7:42 a.m.