RCPA (version 0.2.6)

downloadGEO: Download GEO data

Description

This function download and process data from GEO for microarray and RNASeq data.

Usage

downloadGEO(GEOID, protocol = c("affymetrix", "agilent"), platform, destDir)

Value

A vector of file paths to the downloaded files. The first element is the metadata file.

Arguments

GEOID

The ID of the GEO dataset.

protocol

The protocol of selected GEO dataset.

platform

The platform of selected GEO dataset.

destDir

A path to save downloaded data. If the directory does not exist, it will be created.

Examples

# \donttest{
library(RCPA)
# Affymetrix
downloadPath <- file.path(tempdir(), "GSE59761")
fileList <- RCPA::downloadGEO(GEOID = "GSE59761", protocol = "affymetrix",
                                platform ="GPL16311", destDir = downloadPath)
# }