NAME
GO::Metadata::Panther - Species info for data used by Panther Clusters
SYNOPSIS
use GO::Metadata::Panther;my $s = GO::Metadata::Panther->code('YEAST');
DESCRIPTION
Inherits functions from GO::Metadata::UniProt::Species.
Accesses information related to species in the Panther seq2pthr.gz file. This file can be fetched from: <ftp://ftp.pantherdb.org/genome/pthr7.0/>
Exportable Subroutines
- panther_codes()
-
Returns the list of UniProt species codes that are used in Panther clusters.
- GO::Metadata::Panther->panther_all()
-
Returns a list of
"GO::Metadata::Panther"objects that are used in Panther clusters.
- valid_codes(...)
-
Returns a true value in every argument is a UniProt species code used in Panther cluster. Otherwise returns false.
OO Function
- GO::Metadata::Panther->new(...);
-
This basically hands things off to GO::Metadata::UniProt::Species's new function. Populates that with other Panther/GO specific information, and does some error correction.
- $s->ncbi_taxa_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.
- $s->prefers()
-
Returns a list of id types (generally to be populated in
"dbxref.xref_dbname") in order of preference of use. If a null list, we have never encountered a conflict that needed resolving.
SEE ALSO
GO::Metadata::UniProt::Species
AUTHOR
Sven Heinicke <[email protected]</gt>