| getBM {biomaRt} | R Documentation |
This function retrieves information from the BioMart database
getBM(attributes, filter, values, mart)
attributes |
Attributes you want to retrieve. A possible list of attributes can be retrieved using the function listAttributes. |
filter |
Filter that should be used in the query. A possible list of filters can be retrieved using the function listFilters. |
values |
Values of the filter, e.g. list of affy id's |
mart |
object of class Mart, containing connections to the BioMart databases. You can creat such an object using the function useMart and update the mart object by selecting a dataset using the function useDataset. |
Steffen Durinck, http://www.esat.kuleuven.ac.be/~sdurinck
if(interactive()){
marts<-listMarts()
index<-grep("ensembl",marts)
mart <- useMart(marts[index])
datasets <- listDatasets(mart)
mart<-useDataset("hsapiens_gene_ensembl",mart)
getBM(attributes=c("external_gene_id","chr_name","band"),filter="affy_hg_u95_v2",values=c("1939_at","1503_at","1454_at"), mart=mart)
martDisconnect(mart = mart)
}