downloadGEO | R Documentation |
This function download and process data from GEO for microarray and RNASeq data.
downloadGEO(GEOID, protocol = c("affymetrix", "agilent"), platform, destDir)
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. |
A vector of file paths to the downloaded files. The first element is the metadata file.
library(RCPA)
# Affymetrix
downloadPath <- file.path(tempdir(), "GSE59761")
fileList <- RCPA::downloadGEO(GEOID = "GSE59761", protocol = "affymetrix",
platform ="GPL16311", destDir = downloadPath)
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