downloadTCGA {UCSCXenaTools} | R Documentation |
Easily Download TCGA Data by Several Options
Description
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.
Usage
downloadTCGA(
project = NULL,
data_type = NULL,
file_type = NULL,
destdir = tempdir(),
force = FALSE,
...
)
Arguments
project |
default is |
data_type |
default is |
file_type |
default is |
destdir |
specify a location to store download data. Default is system temp directory. |
force |
logical. if |
... |
other argument to |
Details
All availble information about datasets of TCGA can access vis availTCGA()
and
check with showTCGA()
.
Value
same as XenaDownload()
function result.
Author(s)
Shixiang Wang w_shixiang@163.com
See Also
XenaQuery()
,
XenaFilter()
,
XenaDownload()
,
XenaPrepare()
,
availTCGA()
,
showTCGA()
Examples
## Not run:
# download RNASeq data (use UVM as example)
downloadTCGA(project = "UVM",
data_type = "Gene Expression RNASeq",
file_type = "IlluminaHiSeq RNASeqV2")
## End(Not run)