安装
# 安装与加载R包
source("https://bioconductor.org/biocLite.R")
biocLite("RTCGAToolbox")
library(RTCGAToolbox)
getFirehoseDatasets() #查看可选的组织类型
[1] “ACC” “BLCA” “BRCA” “CESC” “CHOL” “COADREAD”
[7] “COAD” “DLBC” “ESCA” “FPPP” “GBMLGG” “GBM”
[13] “HNSC” “KICH” “KIPAN” “KIRC” “KIRP” “LAML”
[19] “LGG” “LIHC” “LUAD” “LUSC” “MESO” “OV”
[25] “PAAD” “PCPG” “PRAD” “READ” “SARC” “SKCM”
[31] “STAD” “STES” “TGCT” “THCA” “THYM” “UCEC”
[37] “UCS” “UVM”
查看数据更新时间
getFirehoseRunningDates()
数据下载
设置数据存储路径
stewed('/your/pwd')
选择要下载的数据及具体的数据类目
BLCAdata <- getFirehoseData(dataset = "BLCA",runDate = "20160128",gistic2_Date = "20160128",RNAseq_Gene = TRUE,Clinic = TRUE,Mutation = TRUE)
获取数据中的临床数据
BLCAClinical = getData(BLCAdata,"Clinical")
