getMultiOmicsModules: Extract multi-omics modules based on the similarity matrix.

In SmCCNet: Sparse Multiple Canonical Correlation Network Analysis Tool

Description

Apply hierarchical tree cutting to the similarity matrix and extract modules that contain both omics data types.

Usage

getMultiOmicsModules(Abar, P1, CutHeight = 1 - 0.1^10, PlotTree = TRUE)

Arguments

Abar	A similary matrix for all features (both omics data types).
P1	Total number of features for the first omics data type.
CutHeight	Height threshold for the hierarchical tree cutting. Default is 1-0.1^{10}.
PlotTree	Logical. Whether to create a hierarchical tree plot.

Value

A list of multi-omics modules.

Examples

set.seed(123)
w <- rnorm(5)
w <- w/sqrt(sum(w^2))
abar <- getAbar(w, P1 = 2, FeatureLabel = NULL)
modules <- getMultiOmicsModules(abar, P1 = 2, CutHeight = 0.5)

SmCCNet documentation built on May 1, 2019, 10:53 p.m.