[Bioperl-l] blast best hit

Frank Schwach fs5 at sanger.ac.uk
Thu Mar 31 10:23:33 EDT 2011


Yes, best_hit_only is a boolean that can be set to true if you only want
one hit to be returned from the stream of hits (the best hit). I have
never actualyl used this one but you shoud be able to set it in the
constructor as in:
my $blast = Bio::SearchIO->new( ...., -best_hit_only => 1 )



Frank

On Thu, 2011-03-31 at 14:28 +0200, boyang zhe wrote:
> Hi,
> 
> I just want to parse the blast results ,and get the best hit.
> 
> One way is to parse the results as usual, then get the first hit and exit
> the loop.
> 
> I checked the bioperl document, and find that there is a method
> best_hit_only in Bio::SearchIO::blast.pm.
> But it only return 1/0. So my question is how to use this method to get the
> best hit.
> 
> Thank you very much!
> 
> Boyang
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