Package: biomaRt
Description: The package provides and API in R to query BioMart
databases such as Ensembl (http://www.ensembl.org), a software
system which produces and maintains automatic annotation on
metazoan genomes. Two sets of functions are currently
implemented. A first set of functions aims to mimic
functionality of other BioMart API's such as Martshell,
Martview, etc. (see http://www.biomart.org for more
information). These functions are very general, and can be
used with any BioMart system. They allow retrieval of all
information that other BioMart API's provide. A Second set of
functions are tailored towards Ensembl and are a set of
commonly used queries in microarray data analysis. With these
two sets of functions, one can for example annotate the
features on your array with the latest annotations starting
from identifiers such as affy id's, locuslink, RefSeq,
entrezgene,.. Annotation includes gene names, GO, OMIM
annotation, etc. The package also provides homology mappings
between these identifiers across all species present in
Ensembl. Genes can be pre-selected such that they fulfill a
certain requirement e.g. give all human refseq id's of genes
known to be involved in diabetes.On top of this, biomaRt
enables you to retrieve any type of information available from
the BioMart databases from R.
Version: 1.4.0
Author: Steffen Durinck , Wolfgang
Huber , Sean Davis
Maintainer: Steffen Durinck
Dependencies: methods, RMySQL, XML
Suggests: None
SystemRequirements: None
License: LGPL version
URL: http://www.esat.kuleuven.ac.be/~sdurinck
Function Descriptions
Source package download
Win32 package download