downloadAndPrepareMetadata: Download GEO metadata

In AEBilgrau/DLBCLdata: Automated and reproducible download and preprocessing of DLBCL data

Description

Function for downloading the metadata of a GEO dataset and prepare it for analysis. The function uses getGEOSuppFiles which downloads the data. The function then unzips the data files in the GEO series.

Usage

downloadAndPrepareMetadata(geo_nbr, destdir = getwd(), clean = FALSE,
  verbose = TRUE)

Arguments

geo_nbr	The GEO ascession number.
destdir	The destination dir of the downloaded files.
clean	Should the strictly unnessesary files be deleted?
verbose	Signal the process.

Value

A list of data.frames giving the clinical and metadata information for the GEO dataset.

Note

The function will overwrite existing files in the destdir.

Author(s)

Anders Ellern Bilgrau, Steffen Falgreen Larsen

Examples

## Not run: 
print(DLBCL_overview)
geo_nbr <- DLBCL_overview[6,1]
downloadAndPrepareMetadata(geo_nbr = geo_nbr, destdir = getwd())

## End(Not run)

AEBilgrau/DLBCLdata documentation built on May 5, 2019, 11:29 a.m.