downloadTCGA: Easily Download TCGA Data by Several Options
In huyuem/UCSCXenaTools: Download and Explore Datasets from UCSC Xena Data Hubs

Description Usage Arguments Details Value Author(s) See Also Examples

TCGA is a very useful database and here we provide this function to download TCGA (include TCGA Pancan) datasets in human-friendly way. Users who are not familiar with R operation will benefit from this.

downloadTCGA(
  project = NULL,
  data_type = NULL,
  file_type = NULL,
  destdir = tempdir(),
  force = FALSE,
  ...
)

`project`	default is `NULL`. Should be one or more of TCGA project id (character vector) provided by Xena. See all available project id, please use `availTCGA("ProjectID")`.
`data_type`	default is `NULL`. Should be a character vector specify data type. See all available data types by `availTCGA("DataType")`.
`file_type`	default is `NULL`. Should be a character vector specify file type. See all available file types by `availTCGA("FileType")`.
`destdir`	specify a location to store download data. Default is system temp directory.
`force`	logical. if `TRUE`, force to download data no matter whether files exist. Default is `FALSE`.
`...`	other argument to `download.file` function

All availble information about datasets of TCGA can access vis availTCGA() and check with showTCGA().

same as XenaDownload() function result.

Shixiang Wang w_shixiang@163.com

UCSCXenaTools::XenaQuery(), UCSCXenaTools::XenaFilter(), UCSCXenaTools::XenaDownload(), UCSCXenaTools::XenaPrepare(), UCSCXenaTools::availTCGA(), UCSCXenaTools::showTCGA()

## Not run: 
# download RNASeq data (use UVM as example)
downloadTCGA(project = "UVM",
                 data_type = "Gene Expression RNASeq",
                 file_type = "IlluminaHiSeq RNASeqV2")

## End(Not run)