Description Usage Arguments Value Examples
Queries GEO Data Sets for IDATs, and downloads available IDATs. This uses anticipated string pattern to construct the URL path for the query. IDATs are detected from the supplement for a GSE record.
1 2 3 4 5 6 7 8 | gds_idatquery(
gsmvi,
ext = "gz",
expand = TRUE,
verbose = FALSE,
dfp = "idats",
burl = paste0("ftp://ftp.ncbi.nlm.nih.gov/geo/samples/")
)
|
gsmvi |
Vector of valid GSM IDs. |
ext |
Filename extension. |
expand |
Whether to expand compressed files. |
verbose |
Whether to show verbose messages (default FALSE). |
dfp |
Destination directory for downloads. |
burl |
Base URL string for RCurl query. |
Lists the basename paths and filenames of IDATs downloaded.
1 2 | gsmvi <- c("GSM2465267", "GSM2814572")
gds_idatquery(gsmvi, dfp = file.path(tempdir(), "gds_idatquery_example"))
|
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