linux下TCGA数据下载,TCGA-各类数据下载总结

转载 一路向前_莫问前程_前程似锦

TCGAbiolinks

最新版的TCGA是比对到hg38

基于RNAseq的测序count文件下载

query

# Gene expression aligned against hg38query

query

query = GDCquery(project = "TCGA-COAD", data.category = "Transcriptome Profiling", data.type = "miRNA Expression Quantification") query = GDCquery(project = "TARGET-AML", data.category = "Transcriptome Profiling", data.type = "miRNA Expression Quantification", workflow.type = "BCGSC miRNA Profiling"个性化下载—使用样本类型只获得原发性实体肿瘤样本和正常实体组织

# Using sample type to get only Primary solid Tumor samples and Solid Tissue Normalquery.mirna

# All DNA methylation data for TCGA-GBM and TCGA-GBMquery.met

query.met

# Searching idat file for DNA methylationquery