Provided by: libbio-perl-perl_1.7.2-3_all bug

NAME

       Bio::Matrix::Scoring - Object which can hold scoring matrix information

SYNOPSIS

         use Bio::Matrix::Scoring;

DESCRIPTION

       An object which can handle AA or NT scoring matrix information.  Some transformation
       properties are available too.

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::Scoring->new();
        Function: Builds a new Bio::Matrix::Scoring object
        Returns : an instance of Bio::Matrix::Scoring
        Args    :

   entropy
        Title   : entropy
        Usage   : $obj->entropy($newval)
        Function:
        Example :
        Returns : value of entropy (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   expected_score
        Title   : expected_score
        Usage   : $obj->expected_score($newval)
        Function:
        Example :
        Returns : value of expected (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   scale
        Title   : scale
        Usage   : $obj->scale($newval)
        Function:
        Example :
        Returns : value of scale (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   scale_value
        Title   : scale_value
        Usage   : $obj->scale_value($newval)
        Function:
        Example :
        Returns : value of scale_value (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   description
        Title   : description
        Usage   : $obj->description($newval)
        Function:
        Example :
        Returns : value of description (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   database
        Title   : database
        Usage   : $obj->database($newval)
        Function:
        Example :
        Returns : value of database (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   lowest_score
        Title   : lowest_score
        Usage   : $obj->lowest_score($newval)
        Function:
        Example :
        Returns : value of lowest_score (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   highest_score
        Title   : highest_score
        Usage   : $obj->highest_score($newval)
        Function:
        Example :
        Returns : value of highest_score (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   lambda
        Title   : lambda
        Usage   : $obj->lambda($newval)
        Function:
        Example :
        Returns : value of lambda (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

   H
        Title   : H
        Usage   : $obj->H($newval)
        Function:
        Example :
        Returns : value of H (a scalar)
        Args    : on set, new value (a scalar or undef, optional)