getSequence {biomaRt}R Documentation

Retrieves sequences

Description

This function retrieves sequences given the chomosome, start and end position

Usage

getSequence( species = NULL, chromosome = NULL, start = NULL, end = NULL, martTable = NULL, mart = NULL)

Arguments

species Species information. A list of possible values for this argument can be obtained by the function getSpecies.
chromosome Chromosome name
start start position of sequence on chromosome
end end position of sequence on chromosome
martTable alternatively a martTable can be used containing all information
mart object of class Mart, containing connections to the BioMart databases. You can creat such an object using the function martConnect.

Author(s)

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

See Also

Examples

## Not run: 
mart <- martConnect()

getSequence(species="ggallus", chromosome = 1, start = 400, end = 500, mart = mart)

martDisconnect(mart = mart)
## End(Not run)

[Package biomaRt version 1.0.4 Index]