Provided by: libbio-perl-perl_1.6.901-2_all bug


       Bio::Coordinate::Result - Results from coordinate transformation


         use Bio::Coordinate::Result;

         #get results from a Bio::Coordinate::MapperI
         $matched = $result->each_match;


       The results from Bio::Coordinate::MapperI are kept in an object which itself is a split
       location, See Bio::Location::Split. The results are either Matches or Gaps.  See
       Bio::Coordinate::Result::Match and Bio::Coordinate::Result::Gap.

       If only one Match is returned, there is a convenience method of retrieving it or accessing
       its methods. Same holds true for a Gap.


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AUTHOR - Heikki Lehvaslaiho

       Email:  heikki-at-bioperl-dot-org


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

        Title   : add_sub_Location
        Usage   : $obj->add_sub_Location($variant)

                  Pushes one Bio::LocationI into the list of variants.

        Example :
        Returns : 1 when succeeds
        Args    : Location object

        Title   : add_result
        Usage   : $obj->add_result($result)
        Function: Adds the contents of one Bio::Coordinate::Result
        Example :
        Returns : 1 when succeeds
        Args    : Result object

         Title   : seq_id
         Usage   : my $seqid = $location->seq_id();
         Function: Get/Set seq_id that location refers to

                   We override this here in order to propagate to all sublocations
                   which are not remote (provided this root is not remote either)

         Returns : seq_id
         Args    : [optional] seq_id value to set

   Convenience methods
       These methods are shortcuts to Match and Gap locations.

        Title   : each_gap
        Usage   : $obj->each_gap();

                   Returns a list of Bio::Coordianate::Result::Gap objects.

        Returns : list of gaps
        Args    : none

        Title   : each_match
        Usage   : $obj->each_match();

                   Returns a list of Bio::Coordinate::Result::Match objects.

        Returns : list of Matchs
        Args    : none

        Title   : match
        Usage   : $match_object = $obj->match(); #or
                  $gstart = $obj->gap->start;
        Function: Read only method for retrieving or accessing the match object.
        Returns : one Bio::Coordinate::Result::Match
        Args    :

        Title   : gap
        Usage   : $gap_object = $obj->gap(); #or
                  $gstart = $obj->gap->start;
        Function: Read only method for retrieving or accessing the gap object.
        Returns : one Bio::Coordinate::Result::Gap
        Args    :

        Title   : purge_gaps
        Usage   : $gap_count = $obj->purge_gaps;
        Function: remove all gaps from the Result
        Returns : count of removed gaps
        Args    :