GO::Metadata::Panther(3pm)				User Contributed Perl Documentation				GO::Metadata::Panther(3pm)

NAME

       GO::Metadata::Panther - Species info for data used by Panther Clusters

SYNOPSIS

	use GO::Metadata::Panther qw/@species/;

	for my $species (@species) {
	 # do something
	}

       Or

	use GO::Metadata::Panther;
	my $s = GO::Metadata::Panther->code('YEAST');

DESCRIPTION

       Accesses information related to species in the Panther seq2pthr.gz file.  This file can be fetched from:
       <ftp://ftp.pantherdb.org/genome/pthr7.0/>

       Each item in the exportable @species array contains a hash reference for each species.  The items in that hash are:

       code
	   A scalar or the UniProt species code.

       ncbi_taxa_id
	   A scalar reference of NCBI taxa ids that items in the GO database match.  This should only be one id, but sometimes it's useful to scan
	   multiple.

       For a complete list of every UniProt species matched to a NCBI taxa <http://www.uniprot.org/docs/speclist>

   Constructors
       The constructors scans @species for the requested data and returns the object that matches the data.  Otherwise it returns a false false.

       my $s = GO::Metadata::Panther->code(unicode_species_code)
	   Return an object filled with the species reference from the UniProtKB species code.

       my $s = GO::Metadata::Panther->ncbi(ncbi_taxa_id)
	   Greate an object from the ncbi_taxa_id.

   Function
       Functions that can be used outside of the OO interface.

       GO::Metadata::Panther::codes()
	   Returns a list of all UniProt species codes in @species.

       GO::Metadata::Panther::valid_codes(unicode_species_code)
	   Send it a list of panther Unicode codes, returns true if they are all present in @species.  Othewise returns false.

   OO Function
       $s->ncbi_ids()
	   Returns the list of NCBI taxa identifiers associated with the UniProt species code.	In a perfect word this will only every return one
	   value.  In any case, the first value will be the actual numeric identifier associated.

   AUTHOR
       Sven Heinicke <sven@genomics.princeton.edu</gt>

perl v5.14.2							    2010-07-08						GO::Metadata::Panther(3pm)