Hello Adam,

While Blast is not on the public server, it can be integrated into a local or cloud instance and the query rRNA sequence compared to the genomes. Results and genome data can be uploaded (use FTP), parsed (see: NGS: Mapping -> Parse blast XML output, and analyzed in either your own instance or at the public site.

Details to set up your own instance and obtain tool wrappers are in our wiki: http://getgalaxy.org http://galaxyproject.org/wiki/Tool%20Shed

Regards,

Jen Galaxy team

On 9/22/11 7:46 AM, Adam Stell wrote:

So I am new to Galaxy. Is there a way to search for 18S rRNA sequences in my metagenomes?

---

The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/