[Bioperl-l] Fuzzy matching sequences

Kris Boulez krbou@pgsgent.be
Fri, 16 Mar 2001 14:00:00 +0100

Quoting Jurgen Pletinckx (jurgen.pletinckx@algonomics.com):
> # From: ... Kris Boulez
> # 
> # ... if there are sequences containing the x-mer when allowing
> # one point mutation (anywhere in the overlap). To make things even worse:
> # some of these sequences contain N .
> # 
> # Do people know of a way to do this using perl regexes (I couldn't find
> # anything in the Friedl book). The only solution I can think of is to
> # create a blastable DB from the x-mers and blast all sequences against
> # this DB. 
> Not a regex solution, but: this sounds like a job for String::Approx 
> (disclaimer: haven't used it myself.) 

Thanks very much. This indeed seems to be exactly what I was looking

Good to see so much Perl knowledge available in Gent.