Dear Max, Apologies for the trouble you are experiencing. However, the BioMart team is not responsible for the content of individual data mart federated at our central portal (www.biomart.org). Please contact data provider for questions regarding data content, in your case, the Ensembl team ([email protected], cc'd here).
Best regards, Junjun > -----Original Message----- > From: [email protected] > [mailto:[email protected]] On Behalf Of Maximilian Haussler > Sent: Monday, November 02, 2009 6:05 AM > To: [email protected] > Subject: [mart-dev] Problem with downloading orthologs > > Dear mart gurus, > > I am trying to download the orthologs between human and all > other species in ensembl via biomart's REST service without > hardcoding the names into my scripts as I want the scripts to > work even with the next ensembl version. This is not easy. > > The problem is that I have no idea how you name the species > in the biomart. You are not using the scientific name (which > would be probably the simplest choice). You not using the > common name (at least not the one from > ensembl_website_56.species.) I have the impression that you > are sometimes using the common name (wallaby), sometimes > using the scientific name (ciona_intestinalis). > > Is there any way for me to retrieve the list of species used > in the biomart and map them to the scientific names used in Ensembl? > > Thanks in advance > Max >
