hi, peter - i will fix the description and upload hmmsearch and infernal
On Wed, Feb 29, 2012 at 2:05 AM, Peter Cock <p.j.a.c...@googlemail.com>wrote:
> On Tue, Feb 28, 2012 at 10:31 PM, Dave Clements
> <cleme...@galaxyproject.org> wrote:
> > Hi Peter,
> > I think hmmerscan has been wrapped, but there is a missing "e" in the
> > repository name. Look for "hmmscan" in the toolshed. The description
> > it is:
> > hmmscan, for searching pfam with AA seqs. also included is hmm datatypes
> > although hmmbuild, etc. isnt included yetX ill try to finish the rest of
> > hmmer suite soon
> > Does that help?
> > Dave C.
> Very helpful Dave, thanks.
> Actually hmmscan is the name of one of the HMMER binaries, rather than
> hmmerscan (with an 'er' in the middle, which was a typo on my part).
> I've included Edward directly in this thread hoping he can clarify which
> version of HMMER he was wrapping (2 vs 3).
> Also I'd like to ask Edward if he could add the word HMMER to the tool's
> description to facilitate future searchers (and HMMER2 or HMMER3 as
> I might be interested in helping to extend the wrapper for more of the
> HMMER3 toolkit. In particular hmmsearch might be relevant, which
> is designed for one (or a few) profiles vs. a big seq database while
> hmmscan is designed for one (or a few) sequences vs. a big profile
> database. See http://selab.janelia.org/people/eddys/blog/?p=424
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