NAME

       Bio::Matrix::IO::scoring - A parser for PAM/BLOSUM matricies

SYNOPSIS

         use Bio::Matrix::IO;
         my $parser = Bio::Matrix::IO->new(-format => 'scoring',
                                          -file   => 'BLOSUM50');
         my $matrix = $parser->next_matrix;

DESCRIPTION

       Describe the object here

FEEDBACK

   Mailing Lists
       User feedback is an integral part of the evolution of this and other Bioperl modules. Send
       your comments and suggestions preferably to the Bioperl mailing list.  Your participation
       is much appreciated.

         bioperl-l@bioperl.org                  - General discussion
         http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their
       resolution. Bug reports can be submitted via the web:

         https://github.com/bioperl/bioperl-live/issues

AUTHOR - Jason Stajich

       Email jason-at-bioperl-dot-org

APPENDIX

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

   new
        Title   : new
        Usage   : my $obj = Bio::Matrix::IO::scoring->new();
        Function: Builds a new Bio::Matrix::IO::scoring object
        Returns : an instance of Bio::Matrix::IO::scoring
        Args    :

   next_matrix
        Title   : next_matrix
        Usage   : my $matrux = $parser->next_matrix
        Function: parses a scoring matrix (BLOSUM,PAM styles)
        Returns : L<Bio::Matrix::Scoring>
        Args    : none

   write_matrix
        Title   : write_matrix
        Usage   : $matio->write_matrix($matrix)
        Function: Write out a matrix in the BLOSUM/PAM format
        Returns : none
        Args    : L<Bio::Matrix::Scoring>