TOM.square.matrix: Computing a square matrix of Topological Overlap

In jtcasemajor/GENEXPRESSO: Comparison of DEG and coexpression tools

Description

Uses the TOMsimilarityFromExpr() function from the WGCNA package

Usage

TOM.square.matrix(data)

Arguments

data	Dataset of gene expression levels with genes in row and samples in columns

Value

square matrix of TOM similarity measurements for each genes

Examples

# Creating a dataset
df = matrix(runif(500, 10, 100), ncol=20)
group = paste0(rep(c("control", "case"), each = 10),rep(c(1:10),each = 1))
genes <- paste0(rep(LETTERS[1:25], each=1))
colnames(df) = group
row.names(df) = genes

# Computing TOM similarity
TOM = TOM.square.matrix(df)

jtcasemajor/GENEXPRESSO documentation built on Dec. 21, 2021, 4:11 a.m.