DGE: limma voom method

In afitz-gmu/DGE-Analysis: Bioinformatics plots for various Visualization

Description

limma voom method

Usage

DGE(
  count.table,
  design.matrix,
  method = c("EdgeR", "EdgeRLTR", "voom", "DESeq2")
)

Arguments

count.table	count table
design.matrix	design matrix
method	DGEs methods EdgeR , EdgeRLTR, voom , DESeq2. User can choose any of the listed methods or all methods will be run by default.

Value

list of data frame of differential gene expression quantification by various method

Examples

data("count.table")
design <- data.frame("trt" = colnames(count.table))
rownames(design) <- design$trt
design$trt <- as.integer(grepl("T",design[,1]))

DGE.list <- DGE(count.table = count.table , design.matrix = design)

afitz-gmu/DGE-Analysis documentation built on April 3, 2021, 2:39 a.m.