Function to extract the clinical annotations from TCGA

This function download and extract the clinical annotations from TCGA.

getTCGAClinicalAnnotation(
  cancerCodes = "ACC",
  outputFolder = tempdir(),
  plotdata = NULL
)

Arguments

cancerCodes

A character vector of TCGA cancer codes

outputFolder

path of the file containing the clinical annotations from TCGA

plotdata

Flag to plot the annotations

Value

A list containing the TCGA clinical annotations

Author

Mayank Tandon, Ashish Jain

Examples

library(MAFDash)
cancerCodes <- "ACC"
#clinicalData <- getTCGAClinicalAnnotation(cancerCodes = cancerCodes)