Definitely-- this is a good example of services that are needed to round out expected capabilities for the system. We should enumerate as many of these as possible asap. Adam On Thu, Jan 3, 2013 at 8:10 PM, Christopher Henry <[email protected]>wrote:

So I'm wondering what kinds of blast services exist for KBase at the moment.

Do we offer services that enable a user to blast a particular sequence against all genomes in our database?

Specifically, I'm interested in a service that lets me "TBlastN" a series of candidate protein sequences against a specified set of KBase genomes. The idea is I think these proteins might be in these genomes, but they're not being spotted in part because of an error or omission in the gene calls.

Do we have something that does this? If not, it seems like a good service to create. Seems like KBase should support all forms of blast if possible. If it's missing and we think we want to create it, is there an existing service in KBase that this would fit nicely into? Perhaps the genome annotation service?

Chris _______________________________________________ Microbe mailing list [email protected] https://lists.kbase.us/mailman/listinfo/microbe

-- Adam Paul Arkin Dean A. Richard Newton Memorial Chair ------------------------------------- Director, Physical Biosciences Division E.O. Lawrence Berkeley National Laboratory Professor, Department of Bioengineering University of California Berkeley, CA, 94720 CEO/CSO, DOE Systems Biology Knowledgebase, http://kbase.us Director, Berkeley Synthetic Biology Institute, http://synbio.berkeley.edu PI and Co-Director, Virtual Institute of Microbial Stress and Survival, http://vimss.lbl.gov Investigator, Energy Biosciences Institute, http://energybiosciencesinstitute.org Office: 512C Energy Biosciences Building (Berkeley Campus) Mailing address: E.O. Lawrence Berkeley National Laboratory 1 Cyclotron Road, MS 955-512L Berkeley, CA 94720 Contact: W: http://genomics.lbl.gov V: 510-495-2366 C: 510-206-1389 F: 510-486-6219 Assistant: Gwyneth A. Terry V: 510-495-2116 E: [email protected] -------------------------------------