martConnect {biomaRt}R Documentation

Connects to available BioMarts

Description

This function connects to available BioMarts

Usage

martConnect(biomarts = "ensembl", host, user, password, mart, local = FALSE)

Arguments

biomarts vector with BioMart database names you want to connect to. Use one or a vector of the following BioMart database names: ensembl (default, for gene information, GO and OMIM annotation),sequence (for sequence retrieval), snp (for SNP retrieval), uniprot (for protein related data), vega (for VEGA gene annotation)
host If you want to use a local host or a miror database, use vector of hosts. For connecting to public BioMarts this parameter is not required
user username, use vector of usernames for non public or miror BioMarts
password password, use vector of passwords for non-public or miror BioMarts
mart Mart object, use if you want to add a connection to a BioMart to an existing Mart object
local boolean to specify if you want to use a locally installed BioMart or a mirror BioMart database

Author(s)

Steffen Durinck, http://www.esat.kuleuven.ac.be/~sdurinck

Examples

if(interactive()){
mart <- martConnect(biomarts = c("ensembl","sequence"))

martDisconnect(mart = mart)
}

[Package biomaRt version 1.6.3 Index]