Package: biomaRt
Version: 1.8.2
Title: Interface to BioMart databases (e.g. Ensembl, Wormbase, Gramene
        and Uniprot)
Author: Steffen Durinck <durincks@mail.nih.gov>, Wolfgang Huber
        <huber@ebi.ac.uk>, Sean Davis <sdavis2@mail.nih.gov>
Maintainer: Steffen Durinck <durincks@mail.nih.gov>
Depends: methods, XML, RCurl
Suggests: annotate
biocViews: Annotation
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 APIs 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 APIs 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 Affymetrix, 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 ids 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. Other examples of BioMart databases are Wormbase and
        Gramene.
License: Artistic License 2.0
SaveImage: yes
Packaged: Fri Feb 16 15:21:54 2007; biocbuild
Built: R 2.4.1; ; 2007-02-16 20:45:32; windows
