biomaRt: listEnsembl – R documentation

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listEnsembl

lists the available BioMart databases hosted by Ensembl

Description

This function returns a list of BioMart databases hosted by Ensembl. To establish a connection use the useMart function.

Usage

listEnsembl(mart = NULL, host = "www.ensembl.org", version = NULL, 
                GRCh = NULL, mirror = NULL, verbose = FALSE)
    listEnsemblGenomes(includeHosts = FALSE)

Arguments

`mart`	mart object created with the useEnsembl function. This is optional, as you usually use `listMarts` to see which marts there are to connect to.
`host`	Host to connect to if different then www.ensembl.org
`version`	Ensembl version to connect to when wanting to connect to an archived Ensembl version
`GRCh`	GRCh version to connect to if not the current GRCh38, currently this can only be 37
`mirror`	Specify an Ensembl mirror to connect to. The valid options here are 'www', 'uswest', 'useast', 'asia'. If no mirror is specified the primary site at www.ensembl.org will be used.
`verbose`	Give detailed output of what the method is doing, for debugging purposes
`includeHosts`	If this option is set to `TRUE` a more detailed output is produced, including the URL used to access the corresponding mart.

Author(s)

Steffen Durinck, Mike L. Smith

Examples

if(interactive()){
listEnsembl()
}

biomaRt

Interface to BioMart databases (i.e. Ensembl)

v2.46.3

Artistic-2.0

Authors

Steffen Durinck [aut], Wolfgang Huber [aut], Sean Davis [ctb], Francois Pepin [ctb], Vince S Buffalo [ctb], Mike Smith [ctb, cre] (<https://orcid.org/0000-0002-7800-3848>)

Initial release