cut_dendro: Module detection for an individual tree

Description Usage Arguments Value

Description

Module detection for an individual tree

Usage

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cut_dendro(tree_dendro, min_cluster_size = 2L, datan, ME_diss_thres,
  name_of_tree = "", qc_plot = TRUE, n_pc = 1,
  nb_min_varExpl = 0.5)

Arguments

tree_dendro

List of tree specific objects including dendrogram, tree data and features originating from the tree_dendro function.

min_cluster_size

Integer. The minimum number of features in one module.

datan

Data frame were rows correspond to samples and columns to features.

ME_diss_thres

Numeric. Module Eigengene Dissimilarity Threshold for merging close modules.

name_of_tree

String. Annotating plots and messages.

qc_plot

Logical. Should plots be created?

n_pc

Number of principal components and variance explained entries to be calculated. The number of returned variance explained entries is currently ‘min(n_pc,10)’. If given ‘n_pc’ is greater than 10, a warning is issued.

nb_min_varExpl

Minimum proportion of variance explained for returned module eigengenes. The number of PCs is capped at n_pc.

Value

List


netboost documentation built on May 6, 2019, 2:42 a.m.