listBgeeSpecies: List species in the Bgee database and the available data...

In BgeeDB: Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology

Description

Returns information on available species in Bgee

Usage

listBgeeSpecies(
  release = NULL,
  ordering = NULL,
  allReleases = NULL,
  removeFile = TRUE
)

Arguments

release	A character specifying a targeted release number. In the form "Release.subrelease" or "Release_subrelease", e.g., "13.2" or 13_2". If not specified, the latest release is used.
ordering	A numeric indicating the number of the column which should be used to sort the data frame. Default NULL, returning unsorted data frame.
allReleases	A data frame with information on all releases. Avoid redownloading this information if .getBgeeRelease() already called.
removeFile	Boolean indicating whether the downloaded file should be deleted. Default to TRUE.

Value

A data frame with species Id, genus name, species name, common name and data type availability for targeted Bgee release

Author(s)

Julien Roux

Examples

{
 listBgeeSpecies()
 # species present in a specific Bgee release
 listBgeeSpecies(release = "13.2")
 # in order to order species according to theit taxonomical IDs
 listBgeeSpecies(ordering = 1)
}

BgeeDB documentation built on Nov. 8, 2020, 8:21 p.m.