On Mon, Mar 12, 2012 at 6:28 PM, John Major <john.e.major...@gmail.com> wrote: > A small warning re-the current cloud-Blast+ config. > > To properly use the metagenomic tools, if you use the blast+ galaxy tool, > make sure to export in blast.XML, then you'll need a script to parse out the > readID and the Hit_def (as the hit ID). It appears that the 'Hit_def' field > contains the correct key to the taxonomy database. Specifically, the > Hit_def field is in the format #_#, where the 'gi' id is the first #. The > tabular (normal and extended) data does not contain this info. > > I noticed this after attempting to use the tabular data, and using a trimmed > col[1] (supposed to be hit seqID), but my results always came back as a > ranked list of the most sequenced genomes in nt.... basically keying in > randomly. > > j
Hi John, Can you expand on that with a specific example (ideally on the galaxy-dev list, CC'd, since BLAST+ isn't event available on the public galaxy)? Also which version of BLAST+ are you using since I recall some changes to the tabular output IDs prior to 2.2.25 (which is what the wrappers were tested on, I've not tried 2.2.26 yet). Thanks, 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/