Search results for "dist:go-perl perl"
go-perl - perl modules for GO and other OBO ontologies
go-perl is part of the go-dev code distribution. It is also available as a seperate library in its own right. go-perl is a collection of perl modules for working with ontologies and data, in particular the Gene Ontology and other Open Bio-Ontologies....
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Parser - parses all GO files formats and types
Module for parsing GO flat files; for examples of GO/OBO flatfile formats see: <ftp://ftp.geneontology.org/pub/go/ontology> <ftp://ftp.geneontology.org/pub/go/gene-associations> For a description of the various file formats, see: <http://www.geneonto...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::ObjFactory - GO Object Factory
You only need to be aware of this class if you are generating new objects. You should not directly create objects like this: $term = GO::Model::Term->new($h); Instead you should create them like this: $fac = GO::ObjFactory->new(); $term = $fac->creat...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Model::Term - a term or concept in an ontology
Represents an Ontology term; the same class is used for process, compartment and function currently, a Term is not aware of its Relationships; to find out how a term is related to other terms, use the a GO::Model::Graph object, which will give you th...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Model::Root
base class for all GO::Model objects...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Model::Graph - a collection of relationships over terms
Object containing Nodes (GO::Model::Term objects) and relationships (:<GO::Model::Relationship> objects) this may be either the whole ontology tree, or a subgraph, depending on how the object is instantiated. ONTOLOGY GRAPH MODEL relationships can be...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::IO::Analysis - preliminary analysis object
top level module for doing analyses eg clustalw on the fly...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Handlers::obj - parses GO files into GO object model
CMUNGALL/go-perl-0.15
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12 Jun 2013 16:22:41 UTC
GO::Handlers::owl - writes OWL
Consumes an OBO-XML event stream and generates OWL XML See the file go-dev/doc/mapping-obo-to-owl.txt For more details...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Handlers::base
Default Handler, other handlers inherit from this class this class catches events (start, end and body) and allows the subclassing module to intercept these. unintercepted events get pushed into a tree See GO::Parser for details on parser/handler arc...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Metadata::Panther - Species info for data used by Panther Clusters
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/>...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC
GO::Handlers::obo_text
transforms OBO XML events into OBO Text <http://www.geneontology.org/GO.format.html#oboflat>...
CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC