Bio::SeqFeature::Similarity(3pm)			User Contributed Perl Documentation			  Bio::SeqFeature::Similarity(3pm)

NAME

       Bio::SeqFeature::Similarity - A sequence feature based on similarity

SYNOPSIS

	   # obtain a similarity feature somehow
	   print "significance: ", $sim_fea->significance(), "
";
	   print "bit score: ", $sim_fea->bits(), "
";
	   print "score: ", $sim_fea->score(), "
";
	   print "fraction of identical residues: ", $sim_fea->frac_identical(), "
";

DESCRIPTION

       This module is basically a sequence features based on similarity, and therefore has support for measures assessing the similarity.

       Everything else is inherited from Bio::SeqFeature::Generic.

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 one of the Bioperl mailing lists.  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 the bugs and their resolution.  Bug reports can be submitted via the
       web:

	 https://redmine.open-bio.org/projects/bioperl/

AUTHOR - Hilmar Lapp
       Email hlapp@gmx.net or hilmar.lapp@pharma.novartis.com

APPENDIX

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

   significance
	Title	: significance
	Usage	: $evalue = $obj->significance();
		  $obj->significance($evalue);
	Function:
	Returns :
	Args	:

   bits
	Title	: bits
	Usage	: $bits = $obj->bits();
		  $obj->bits($value);
	Function:
	Returns :
	Args	:

   frac_identical
	Title	: frac_identical
	Usage	: $fracid = $obj->frac_identical();
		  $obj->frac_identical($value);
	Function:
	Returns :
	Args	:

   seqlength
	Title	: seqlength
	Usage	: $len = $obj->seqlength();
		  $obj->seqlength($len);
	Function:
	Returns :
	Args	:

   seqdesc
	Title	: seqdesc
	Usage	: $desc = $obj->seqdesc();
		  $obj->seqdesc($desc);
	Function: At present this method is a shorthand for
		  $obj->annotation()->description().

		  Note that this is not stored in the tag system and hence will
		  not be included in the return value of gff_string().
	Returns :
	Args	:

perl v5.14.2							    2012-03-02					  Bio::SeqFeature::Similarity(3pm)