Provided by: libbio-perl-perl_1.7.2-2_all bug


       Bio::Search::HSP::PSLHSP - A HSP for PSL output


         # get a PSLHSP somehow (SearchIO::psl)


       This is a HSP for PSL output so we can handle seq_inds differently.


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       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

        Title   : new
        Usage   : my $obj = Bio::Search::HSP::PSLHSP->new();
        Function: Builds a new Bio::Search::HSP::PSLHSP object
        Returns : an instance of Bio::Search::HSP::PSLHSP
        Args    : -gapblocks => arrayref of gap locations which are [start,length]
                                of gaps

        Title   : gap_blocks
        Usage   : $obj->gap_blocks($seqtype,$blocks)
        Function: Get/Set the gap blocks
        Returns : value of gap_blocks (a scalar)
        Args    : sequence type - 'query' or 'hit'
                  blocks - arrayref of block start,length

        Title   : mismatches
        Usage   : $obj->mismatches($newval)
        Function: Get/Set the number of mismatches
        Returns : value of mismatches (a scalar)
        Args    : on set, new value (a scalar or undef, optional)