On Wed, Oct 3, 2012 at 3:54 PM, John DeFilippo <defilippo.j...@gmail.com> wrote: > We're using the free public Galaxy server (main.g2.bx. psu.edu). We > uploaded a genome FASTA sequence via ftp, and want to do BLAST searches > (e.g., tblastn) against protein sequences that we've also uploaded to > Galaxy, as well as on NCBI. BLAST tools don't show in the tools column, or > when entered in the search box. Google searches on 'BLAST in Galaxy' bring > up pages on 'wrappers' and xml, and we're but humble biologists. Can anyone > please explain (simply, presuming no knowledge of wrappers, perl, python, > java, scripts, xml, etc. on our part) how we can do this? Thank you. John D >
Offering BLAST searches is potentially quite computationally expensive, so for the moment at least the BLAST+ suite is not made available on the public Galaxy hosted by Penn State (with the exception of the megablast function offered with four databases only). The BLAST+ wrappers are available on the Galaxy Tool Shed, and can be installed to any local Galaxy server. They can then be run on your local server (and ideally your local cluster). That's what we do. If you have a Galaxy installation at your institute/department/... ask the local Galaxy administrator about this. Regards, Peter ___________________________________________________________ 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/
