Bio::SeqFeature::Similarity - A sequence feature based on similarity
# obtain a similarity feature somehow
print "significance: ", $sim_fea->significance(), "\n";
print "bit score: ", $sim_fea->bits(), "\n";
print "score: ", $sim_fea->score(), "\n";
print "fraction of identical residues: ", $sim_fea->frac_identical(), "\n";
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.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : significance
Usage : $evalue = $obj->significance();
Title : bits
Usage : $bits = $obj->bits();
Title : frac_identical
Usage : $fracid = $obj->frac_identical();
Title : seqlength
Usage : $len = $obj->seqlength();
Title : seqdesc
Usage : $desc = $obj->seqdesc();
Function: At present this method is a shorthand for
Note that this is not stored in the tag system and hence will
not be included in the return value of gff_string().
To install BioPerl, copy and paste the appropriate command in to your terminal.
perl -MCPAN -e shell
For more information on module installation, please visit the detailed CPAN module installation guide.