Interface to BioMart databases (e.g. Ensembl, Wormbase and Gramene)


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Documentation for package ‘biomaRt’ version 2.2.0

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attributePages Gives a summary of the attribute pages
attributeSummary Gives a summary of the attributes groups and categories
exportFASTA Exports getSequence results to FASTA format
filterOptions Displays the filter options
filterType Displays the filter type
getBM Retrieves information from the BioMart database
getBMlist Retrieves information from the BioMart database
getGene Retrieves gene annotation information given a vector of identifiers
getGO Retrieves GO information
getLDS Retrieves information from two linked datasets
getSequence Retrieves sequences
listAttributes lists the attributes available in the selected dataset
listDatasets lists the datasets available in the selected BioMart database
listFilters lists the filters available in the selected dataset
listMarts lists the avilable BioMart databases
Mart-class Class Mart
martDisconnect Disconnects from BioMarts (defunct)
NP2009code Display the analysis code from the 2009 Nature protocols paper
show,Mart-method Class Mart
useDataset Select a dataset to use and updates Mart object
useMart Connects to the selected BioMart database and dataset