TCGAbiolinks is able to access The National Cancer Institute (NCI) Genomic Data Commons (GDC) thorough its
GDC Application Programming Interface (API) to search, download and prepare relevant data for analysis in R.

Installation

You can install the stable version from Bioconductor, or the development version using:

  • Stable version:
source("https://bioconductor.org/biocLite.R")
biocLite("TCGAbiolinks")
  • Development version
devtools::install_github('BioinformaticsFMRP/TCGAbiolinks')

Question and issues

Please use Github issues if you want to file bug reports or feature requests.

Required libraries

The examples in this tutorial use the following libraries:

library(TCGAbiolinks)
library(dplyr)
library(DT)

Session info

version
##                _                           
## platform       x86_64-pc-linux-gnu         
## arch           x86_64                      
## os             linux-gnu                   
## system         x86_64, linux-gnu           
## status                                     
## major          3                           
## minor          3.3                         
## year           2017                        
## month          03                          
## day            06                          
## svn rev        72310                       
## language       R                           
## version.string R version 3.3.3 (2017-03-06)
## nickname       Another Canoe
packageVersion("TCGAbiolinks")
## [1] '2.2.10'