getXML {biomaRt} | R Documentation |
DEPRECATED! - This function is a low level query function bypassing lots of biomaRts internal controls. It allows for a direct XML query to a known BioMart webservice host.
getXML(host="http://www.ensembl.org/biomart/martservice?", xmlquery)
host |
URL to BioMart webservice, is set to http://www.ensembl.org/biomart/martservice? by default |
xmlquery |
XML query that needs to be send to the webservice |
This function has now been deprecated. Similar functionality can be
achieved using the unexported function 'biomaRt:::.submitQueryXML
. If
you are still using this function and this affects your work, please contact
the package maintainer at https://github.com/grimbough/biomaRt/issues
Steffen Durinck, Mike Smith
if(interactive()){ xmlquery="<?xml version='1.0' encoding='UTF-8'?> <!DOCTYPE Query> <Query virtualSchemaName = 'default' uniqueRows = '1' count = '0' datasetConfigVersion = '0.6'> <Dataset name = 'hsapiens_gene_ensembl'> <Attribute name = 'ensembl_gene_id'/> <Filter name = 'chromosome_name' value = 'Y' /> </Dataset> </Query>" getXML(host = "www.ensembl.org/biomart/martservice?", xmlquery = xmlquery) }