GSP
Quick Navigator

Search Site

Unix VPS
A - Starter
B - Basic
C - Preferred
D - Commercial
MPS - Dedicated
Previous VPSs
* Sign Up! *

Support
Contact Us
Online Help
Handbooks
Domain Status
Man Pages

FAQ
Virtual Servers
Pricing
Billing
Technical

Network
Facilities
Connectivity
Topology Map

Miscellaneous
Server Agreement
Year 2038
Credits
 

USA Flag

 

 

Man Pages


Manual Reference Pages  -  BIO::MATRIX::SCORING (3)

.ds Aq ’

NAME

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

CONTENTS

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)



Search for    or go to Top of page |  Section 3 |  Main Index


perl v5.20.3 BIO::MATRIX::SCORING (3) 2016-04-05

Powered by GSP Visit the GSP FreeBSD Man Page Interface.
Output converted with manServer 1.07.