OBO::APO::APO_ID - A module for describing Application Ontology (APO) identifiers. Its idspace, subnamespace and localID are stored.
use OBO::APO::APO_ID;
$id = APO_ID->new();
$id->idspace("APO");
$id->subnamespace("X");
$id->localID("0000001");
$idspace = $id->idspace();
$subnamespace = $id->subnamespace();
$localID = $id->localID();
print $id->id_as_string();
$id->id_as_string("APO:P1234567");
The OBO::APO::APO_ID class implements an Application Ontology identifier.
A APO ID holds: IDSPACE, SUBNAMESPACE and a NUMBER in the following form:
APO:[A-Z][a-z]?nnnnnnn
For instance: APO:Pa1234567
The SUBNAMESPACE may be one of the following:
C Cellular component F Molecular Function P Biological Process B Protein G Gene I Interaction R Reference T Taxon N Instance U Upper Level Ontology (APO) L Relationship type (e.g. is_a) Y Interaction type Z Unknown
plus an extra (optional) qualifier could be added to explicitly capture the organism:
a Arabidopsis thaliana h Homo sapiens y Saccharomyces cerevisiae s Schizosaccharomyces pombe c Caenorhabditis elegans d Drosophila melanogaster m Mus musculus
Erick Antezana, <erick.antezana -@- gmail.com>
Copyright (c) 2006-2015 by Erick Antezana. All rights reserved.
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself, either Perl version 5.8.7 or, at your option, any later version of Perl 5 you may have available.
Usage - print $id->subnamespace() or $id->subnamespace($name) Returns - the subnamespace (string) Args - the subnamespace (string) Function - gets/sets the subnamespace
Usage - print $id->id_as_string() or $id->id_as_string("APO:X0000001") Returns - the id as string (scalar) Args - the id as string Function - gets/sets the id as string
Usage - print $id->equals($id) Returns - 1 (true) or 0 (false) Args - the other ID (OBO::APO::APO_ID) Function - tells if two IDs are equal
Usage - $id->next_id() Returns - the next ID (OBO::APO::APO_ID) Args - none Function - returns the next ID, which is new
Usage - $id->previous_id() Returns - the previous ID (OBO::APO::APO_ID) Args - none Function - returns the previous ID, which is new
To install OBO::Util::Set, copy and paste the appropriate command in to your terminal.
cpanm
cpanm OBO::Util::Set
CPAN shell
perl -MCPAN -e shell install OBO::Util::Set
For more information on module installation, please visit the detailed CPAN module installation guide.