Difference between revisions of "DasFAQ"

Revision as of 05:12, 26 February 2007

DAS Frequently Asked Questions

What applications are the actual "DAS clients"?

DAS applications generally take the form of graphical genome browsers, protein feature/structure browsers, and even gene information browsers.

Examples of DAS applications are listed on both the DAS/1#Clients and DAS/2#Clients pages.

For an example of how Ensembl acts as a DAS client for gene information browsing, see the "Gene DAS Report" section of this page: http://www.ensembl.org/Homo_sapiens/geneview?gene=ENSG00000165029

Here's an interesting review of EBI DAS clients: http://www.ebi.ac.uk/~rafael/das/index.php?display=clients

Are DAS/1 and DAS/2 designed to interoperate? For example, will I be able to use a DAS/2 client and a DAS/1 server?

DAS/2 is a complete redesign of the original DAS/1 specification, so direct interoperation is not possible. However, the DAS/2 spec has all of the capabilities of the DAS/1 spec (and more!).

As proof of this, a proxy adapter is being developed that will provide a DAS/2 interface around an existing DAS/1 server, allowing DAS/2 clients to interact with existing DAS/1 servers: http://lists.open-bio.org/pipermail/das2/2006-October/000867.html

To fully realize 1 <-> 2 interoperation, there would need to be a DAS/1 proxy adapter for DAS/2 servers, to permit DAS/1 clients to interact with DAS/2 servers. Whether such a utility will be needed or developed remains to be seen.

How does one retrieve genomic coordinates from a list of gene names or Entrez Gene IDs using DAS/2?

See this thread on the DAS/2 discussion list: http://lists.open-bio.org/pipermail/das2/2007-January/000967.html