Cor.square.matrix: Computing a square matrix of correlation coefficients

In jtcasemajor/GENEXPRESSO: Comparison of DEG and coexpression tools

Description

Computing a square matrix of correlation coefficients

Usage

Cor.square.matrix(data, method)

Arguments

data	Dataset of gene expression levels with genes in row and samples in columns
method	Methods to compute the correlation coefficients. "spearman" computes the Spearman's rho, "kendall" uses the Kendall's tau and "pearson" the Pearson's product moment correlation coefficient. These functions are called via the cor() function in the stats package.

Value

square matrix of correlation coefficients

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 square matrix with Spearman's rho
Cor = Cor.square.matrix(df,"spearman")

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