Hi! > Can you explain how the attributes are named? It looks like there > are 4 parts in each [...] > attribute:snp__simple_somatic_mutation__dm__consequence_type > attribute:snp__feature__main__chromosome > [...] Is there any easy way to query for the first 3 values based on the > attribute name? Actually, everything that appears after the colon is the attribute name. If you look at an Ensembl mart, then you will see that the names are considerably shorter there. For example, genes, transcription and protein IDs are identified by: attribute:ensembl_gene_id, attribute:ensembl_transcript_id, attribute:ensembl_peptide_id
The only reason why the names in the SNP mart appear longer is due to their automatic generation by an old version of BioMart (BioMart 0.7). A description about how BioMart 0.7 created attribute names can be found in the old documentation on www.biomart.org under the tab "Docs" -- which I cannot link to right now because the web-site appears to be down. Anyway, you will need to treat everything after the colon as an attribute name, because you do not know which version of BioMart was used to create the mart or whether the person who set up the mart changed them manually. Hm. I hope I have explained this more or less sensibly, but please do not hesitate to ask again if you would like more clarification. Joachim _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
