fetch_tcga_data: This function is used to fetch the TCGA data using...

In yujias424/larrys: Larry's personal package

Description

This function is used to fetch the TCGA data using TCGABiolink package

Usage

fetch_tcga_data(
  tcga_type,
  download_location,
  data_type = "Gene Expression Quantification",
  workflow_type = "HTSeq - FPKM-UQ",
  sample_type = "Primary Tumor"
)

Arguments

tcga_type	TCGA cancer type to download
download_location	location of download file
data_type	default "Gene Expression Quantification"
workflow_type	"HTSeq - FPKM-UQ"
sample_type	"Primary Tumor"

Value

GDCprepare objects that can be further used for get exp matrix

yujias424/larrys documentation built on Nov. 15, 2020, 9:27 a.m.