Skip to main content
  • Home
  • Development
  • Documentation
  • Donate
  • Operational login
  • Browse the archive

swh logo
SoftwareHeritage
Software
Heritage
Archive
Features
  • Search

  • Downloads

  • Save code now

  • Add forge now

  • Help

  • 1494e59
  • /
  • man
  • /
  • getES.Rd
Raw File Download
Permalinks

To reference or cite the objects present in the Software Heritage archive, permalinks based on SoftWare Hash IDentifiers (SWHIDs) must be used.
Select below a type of object currently browsed in order to display its associated SWHID and permalink.

  • content
  • directory
content badge Iframe embedding
swh:1:cnt:9f31f3b3e634a0dd44537973c9277bba451e801b
directory badge Iframe embedding
swh:1:dir:425d082a601447368002d347cbce86dc2190bf87
Citations

This interface enables to generate software citations, provided that the root directory of browsed objects contains a citation.cff or codemeta.json file.
Select below a type of object currently browsed in order to generate citations for them.

  • content
  • directory
Generate software citation in BibTex format (requires biblatex-software package)
Generating citation ...
Generate software citation in BibTex format (requires biblatex-software package)
Generating citation ...
getES.Rd
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/loadGEO.R
\name{getES}
\alias{getES}
\title{Load ExpressionSet by GEO identifier}
\usage{
getES(name, type = NA, destdir = tempdir(),
  mirrorPath = "https://ftp.ncbi.nlm.nih.gov")
}
\arguments{
\item{name}{String, containing GEO identifier of the dataset.
It should start with 'GSE' or 'GDS' and can include exact GPL
to annotate dataset, separated with dash ('-') from the identifier.}

\item{type}{Type of the dataset: 'GSE' or 'GDS'. If not specified,
the function will take first three letters
of \code{name} variable as type.}

\item{destdir}{Directory for caching loaded Series and GPL
files from GEO database.}

\item{mirrorPath}{URL string which specifies the source of matrices.}
}
\value{
List of ExpressionSet objects, that were available by given
    in \code{name} variable GEO identifier.
}
\description{
\code{getES} return the ExpressionSet object(s) corresponding
    to GEO identifier.
}
\examples{
\dontrun{
    getES('GSE14308', type = 'GSE', destdir = 'cache')
    getES('GSE27112')
}
getES('GDS4922')

}

back to top

Software Heritage — Copyright (C) 2015–2025, The Software Heritage developers. License: GNU AGPLv3+.
The source code of Software Heritage itself is available on our development forge.
The source code files archived by Software Heritage are available under their own copyright and licenses.
Terms of use: Archive access, API— Contact— JavaScript license information— Web API