Functional equivalent of GCG Findpatterns?

Keith James kdj at fes1.sanger.ac.uk
Sun Jan 16 08:33:14 EST 2000


>>>>> "Greg" == Greg Quinn <greg at franklin.burnham-inst.org> writes:

    Greg> Hi; Does anyone know of a publicly available functional
    Greg> equivalent of the GCG FindPatterns program?

The EMBOSS program fuzznuc will search sequences or databases for
arbitrary, short patterns in a similar manner to findpatterns. It
allows a number of mismatches to be supplied.

The output is more terse than findpatterns, but on the other hand
there are no arbitrary limits on the length of sequence to be searched
or number of hits reported.

fuzznuc is part of the EMBOSS package which already covers much of
GCG's functionality. It's homepage is at:

http://www.sanger.ac.uk/Software/EMBOSS/

hth

-- 

Keith James  --  kdj at sanger.ac.uk  --  http://www.sanger.ac.uk/Users/kdj
The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambs CB10 1SA





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