lists the attributes available in the selected dataset
Attributes are the outputs of a biomaRt query, they are the
information we want to retrieve. For example if we want to retrieve all
EntrezGene identifiers of genes located on chromosome X, entrezgene_id
will be the attribute we use in the query. The listAttributes function
lists the available attributes in the selected dataset.
listAttributes(mart, page,what = c("name","description","page"))
searchAttributes(mart, pattern)mart |
object of class Mart created using the useMart function |
page |
Show only the attributes that belong to the specified attribute page. |
what |
vector of types of information about the attributes that need to be displayed. Can have values like name, description, fullDescription, page |
pattern |
Character vector defining the regular expression ( |
Steffen Durinck, Mike Smith
if(interactive()){
## list the available Ensembl marts and use Ensembl Genes
listEnsembl()
ensembl <- useEnsembl(biomart = "ensembl", dataset = 'hsapiens_gene_ensembl')
## list the available datasets in this Mart
listAttributes(mart = ensembl)
## the list of attributes is very long and gets truncated by R
## we can search for a term of interest to filter this e.g. 'start'
searchAttributes(mart = ensembl, pattern = "start")
## filter the attributes to give only entries containing 'entrez' or 'hgnc'
searchAttributes(mart = ensembl, 'entrez|hgnc')
}Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.