Hi Jan, There is a JSON formatter available in Biomart v0.8, check here:
http://www.biomart.org/ and follow the link Version 0.8 The link that you are looking at is a forked and subsequently modified version of Biomart 0.7 (strictly for recreational purposes :D ), so please refrain from using that. Both v0.7 and v0.8 are available through the above mentioned biomart website. Best, Syed On 11 October 2012 03:15, Mountain Man <[email protected]> wrote: > Hi Syed, > > I've seen quite a few Biomart Formatters, but unfortunately none for JSON. > > Do you have some hints on how to get JSON returned from biomart ? I did > not find any useful info in the archives > ( I came a cross a processor="JSON" statement but I'm unsure if that's the > right way ). > > > http://code.google.com/p/massspecdb/source/browse/trunk/code/biomart-perl/lib/BioMart/Formatter/ > > I'm looking for something like a BioMart::Formatter::JSON module which > returns my response as JSON string, with the attribute name as key. > > My current query looks like this : > > /martservice?query=<Query virtualSchemaName = "default" formatter="CSV" > header = "0" uniqueRows = "0" count = "" datasetConfigVersion = "0.6" > > <Dataset name = "hsapiens_gene_ensembl" interface = > "default" > <Filter name = "gene_id" value = "GeneID:0001"/> <Attribute > name = "gene_id" /> <Attribute name = "external_gene_id" /> <Attribute > name = "chromosome_name" /> <Attribute name = "strand" /> <Attribute name = > "start_position" /> <Attribute name = "end_position" /><Attribute name = > "description" /> <Attribute name = "canonical_transcript_stable_id" /> > <Attribute name = "ccds" /> </Dataset> </Query> > > Is there a way to tune this to get JSON or do I have to write my very own > Biomart::Formatter::JSON for this ? If so, do you have any hints and do I > have to register it somewhere so it get's called ? > > Any hint welcome, > > Jan > > > > _______________________________________________ > Users mailing list > [email protected] > https://lists.biomart.org/mailman/listinfo/users > >
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