getOmicsModules: Extract Omics Modules based on Similarity Matrix.
In KechrisLab/SmCCNet: Sparse Multiple Canonical Correlation Network Analysis Tool

getOmicsModules

R Documentation

Extract Omics Modules based on Similarity Matrix.

Description

Apply hierarchical tree cutting to the similarity matrix and extract multi/single-omics network modules.

Usage

getOmicsModules(Abar, CutHeight = 1 - 0.1^10, PlotTree = TRUE)

Arguments

`Abar`	A similary matrix for all features (all omics data types).
`CutHeight`	Height threshold for the hierarchical tree cutting. Default is `1-0.1^{10}`.
`PlotTree`	Logical. Whether to create a hierarchical tree plot, default is set to `TRUE`.

Value

A list of multi/single-omics modules.

Examples


set.seed(123)
w <- rnorm(5)
w <- w/sqrt(sum(w^2))
feature_name <- paste0('feature_', 1:5)
abar <- getAbar(w, FeatureLabel = feature_name)
modules <- getOmicsModules(abar, CutHeight = 0.5)

KechrisLab/SmCCNet documentation built on April 18, 2024, 9:46 p.m.