listEnsembl

mart object created with the useEnsembl function.  This is optional, as you usually use listMarts to see which marts there are to connect to.

mart

Host to connect to if different then www.ensembl.org

host

Ensembl version to connect to when wanting to connect to an archived Ensembl version

version

GRCh version to connect to if not the current GRCh38, currently this can only be 37

GRCh

Mirror to connect to [uswest,useast,asia], If no mirror is specified the default will be used which is www.ensembl.org hosted in the UK

mirror

Give detailed output of what the method is doing, for debugging purposes

verbose

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

methods

In recent years a wealth of biological data has become available in public data repositories. Easy access to these valuable data resources and firm integration with data analysis is needed for comprehensive bioinformatics data analysis.  biomaRt provides an interface to a growing collection of databases implementing the BioMart software suite (http://www.biomart.org). The package enables retrieval of large amounts of data in a uniform way without the need to know the underlying database schemas or write complex SQL queries. Examples of BioMart databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene, Wormbase and dbSNP mapped to Ensembl. These major databases give biomaRt users direct access to a diverse set of data and enable a wide range of powerful online queries from gene annotation to database mining.

listEnsembl: lists the available BioMart databases hosted by Ensembl

Description

Usage

Arguments

Examples