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.


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