get_data: Downloads data from the Genomic Data Commons Portal.

In cdiener/tcgar: A small helper package for using data from the Genomic Data Commons

Description

This will download all data specified in a given manifest file. To generate a valid manifest use the portal at https://gdc-portal.nci.nih.gov/.

Usage

get_data(manifest, out = "gdc_data", quiet = FALSE, np = 4)

Arguments

manifest	Path to the GDC file manifest.
out	Optional. The folder to which to download the data. Default is to extract into a folder named "gdc_data".
quiet	Specifies whether download status info should be supressed (default no).
np	How many parallel download processes should be started.

Value

Nothing.

Examples

# Not run due to large download...
# gbm <- system.file("extdata", "manifest.tsv", package = "tcgar")
# d <- tempdir()
# get_data(gbm, out=d)

cdiener/tcgar documentation built on May 13, 2019, 2:41 p.m.