OBO::CCO::CCO_ID - A module for describing Cell Cycle Ontology (CCO) identifiers. Its idspace, subnamespace and localID are stored.

use OBO::CCO::CCO_ID;

$id = CCO_ID->new();

$id->idspace("CCO");

$id->subnamespace("X");

$id->localID("0000001");

$idspace = $id->idspace();

$subnamespace = $id->subnamespace();

$localID = $id->localID();

print $id->id_as_string();

$id->id_as_string("CCO:P1234567");

The OBO::CCO::CCO_ID class implements a Cell Cycle Ontology identifier.

A CCO ID holds: IDSPACE, SUBNAMESPACE and a NUMBER in the following form:

	CCO:[A-Z][a-z]?nnnnnnn

For instance: CCO: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 (CCO)
	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) 2006-2011 by Erick Antezana

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("CCO: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::CCO::CCO_ID)
  Function - tells if two IDs are equal

  Usage    - $id->next_id()
  Returns  - the next ID (OBO::CCO::CCO_ID)
  Args     - none
  Function - returns the next ID, which is new

  Usage    - $id->previous_id()
  Returns  - the previous ID (OBO::CCO::CCO_ID)
  Args     - none
  Function - returns the previous ID, which is new