| Bio::Symbol::AlphabetI(3pm) | User Contributed Perl Documentation | Bio::Symbol::AlphabetI(3pm) |
Bio::Symbol::AlphabetI - A Symbol Alphabet
# get a Bio::Symbol::AlphabetI object somehow
my @symbols = $alphabet->symbols;
my @subalphas = $alphabet->alphabets;
if( $alphabet->contains($symbol) ) {
# do something
}
Alphabet contains set of symbols, which can be concatenated to form symbol lists. Sequence string, for example, is stringified representation of the symbol list (tokens of symbols).
This module was implemented for the purposes of meeting the BSANE/BioCORBA spec 0.3 only.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : symbols
Usage : my @symbols = $alphabet->symbols();
Function: Get/Set Symbol list for an alphabet
List of symbols, which make up this alphabet.
Returns : Array of L<Bio::Symbol::SymbolI> objects
Args : (optional) Array of L<Bio::Symbol::SymbolI> objects
Title : alphabets
Usage : my @alphabets = $alphabet->alphabets();
Function: Get/Set Sub Alphabet list for an alphabet
Sub-alphabets. E.g. codons made from DNAxDNAxDNA alphabets
Returns : Array of L<Bio::Symbol::AlphabetI> objects
Args : (optional) Array of L<Bio::Symbol::AlphabetI> objects
Title : contains
Usage : if($alphabet->contains($symbol)) { }
Function: Tests of Symbol is contained in this alphabet
Returns : Boolean
Args : L<Bio::Symbol::SymbolI>
| 2018-10-27 | perl v5.26.2 |