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

Description Usage Arguments Value Examples

Description

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

Usage

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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

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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.