geo_info: Extract information from GEO for a given sample
In leekgroup/recount: Explore and download data from the recount project

geo_info

R Documentation

Extract information from GEO for a given sample

Description

This function uses GEOquery to extract information for a given sample. The GEO accession ids for the sample can be found in the study phenotype table.

Usage

geo_info(
  geoid,
  verbose = FALSE,
  sleep = 1/2,
  getGPL = FALSE,
  destdir = tempdir(),
  ...
)

Arguments

`geoid`	A character vector of length 1 with the GEO accession id for a given sample.
`verbose`	If `TRUE` the `geoid` will be shown.
`sleep`	The number of seconds (or fraction) to wait before downloading data using getGEO. This is important if you are looking over `geo_info()` given the constraints published at https://www.ncbi.nlm.nih.gov/books/NBK25497/.
`getGPL`	This argument is passed to getGEO and is set to `FALSE` by default to speed up the process.
`destdir`	This argument is passed to getGEO.
`...`	Additional arguments passed to getGEO.