Bio::Matrix::Scoring - Object which can hold scoring matrix information use Bio::Matrix::Scoring; An object which can handle AA or NT scoring matrix information. Some transformation properties are available too.

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/MailList.shtml - About the mailing lists

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: http://bugzilla.bioperl.org/ Email jason-at-bioperl-dot-org Describe contact details here Additional contributors names and emails here The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new
Title : new Usage : my $obj = new Bio::Matrix::Scoring(); 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)