Hi folks,
A quick question for the list.. We're currently trying to assess how
marts for ensembl variation mart will meet some requirements from one of
our collaborators, so would be interested in how we might achieve some
of them (irrespective of the current mart implementation e.g. links etc.)
One of the use cases involves selecting a group of genes (based on
phenotype) and then trying to find snps that lie within a specified
sequence window upstream of these genes. As far as I can see, both of
these steps are easy to do with martview but can't see a way of
selecting information from the results of one query to feed into another
query without having to carry out some kind of scripting around a mart
API call/sql query. We have some vague memories of query chaining being
mentioned in the past (its alluded to in some online presentations etc.)
but don't see anything beyond the usual dataset links. Any comments on
how this might be achieved would be very welcome, either with the
current or the future implementation of mart.
Many thanks,
Dan.
--
Dan Staines, PhD Ensembl Genomes Technical Coordinator
EMBL-EBI Tel: +44-(0)1223-492507
Wellcome Trust Genome Campus Fax: +44-(0)1223-494468
Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/
