Get differentially expressed genes between tumor and normal samples.

Description

This function inherit differential gene expression analysis from "limma" package. The function creates 2 groups (normal and tumor) based on TCGA barcodes and calculate differential gene expression between groups. Finally it returns "DGEResult" object list.

Usage

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getDiffExpressedGenes(dataObject, DrawPlots = TRUE)

Arguments

dataObject

: "FirehoseData" object that includes raw gene count from RNAseq platform or normalized expression values from array platfroms.

DrawPlots

: if set as "TRUE", function will draw heatmap, volcano plot and model plot from "voom" function.

Value

This function returns a list where each item will be "DGEResult" object for one comparison.

Author(s)

Mehmet Kemal Samur

Examples

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