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Bio::Matrix::Scoring(3User Contributed Perl DocumentatiBio::Matrix::Scoring(3)

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)

perl v5.32.0			  2019-12-07	       Bio::Matrix::Scoring(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | AUTHOR - Jason Stajich | APPENDIX

Want to link to this manual page? Use this URL:
<https://www.freebsd.org/cgi/man.cgi?query=Bio::Matrix::Scoring&sektion=3&manpath=FreeBSD+12.1-RELEASE+and+Ports>

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