📦 libgo-perl

97 pages

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go-apply-xslt(1p)apply GO XSL on OBO-XML✨
go-dag-summary(1p)summarises an ontology✨
go-export-graph(1p)exports a graph✨
go-export-prolog(1p)exports to prolog✨
go-filter-subset(1p)extracts a subgraph from an ontology file✨
go-perl(3pm)perl modules for GO and other OBO ontologies✨
go-show-assocs-by-node(1p)find association for a GO term✨
go-show-paths-to-root(1p)shows all possible paths from a term to the top✨
go2chadoxml(1p)conversion tool and its wrappers✨
go2error_report(1p)converts go/obo to error_report✨
go2fmt(1p)conversion tool and its wrappers✨
go2godb_prestore(1p)conversion tool and its wrappers✨
go2obo(1p)conversion tool and its wrappers✨
go2obo_html(1p)conversion tool and its wrappers✨
go2obo_text(1p)conversion tool and its wrappers✨
go2obo_xml(1p)conversion tool and its wrappers✨
go2owl(1p)conversion tool and its wrappers✨
go2pathlist(1p)conversion tool and its wrappers✨
go2prolog(1p)conversion tool and its wrappers✨
go2rdf(1p)conversion tool and its wrappers✨
go2rdfxml(1p)conversion tool and its wrappers✨
go2summary(1p)conversion tool and its wrappers✨
go2sxpr(1p)conversion tool and its wrappers✨
go2tbl(1p)conversion tool and its wrappers✨
go2text_html(1p)conversion tool and its wrappers✨
go2xml(1p)conversion tool and its wrappers✨
GO::Basic(3pm)basic procedural interface to go-perl✨
GO::Handlers::base(3pm)default handler✨
GO::Handlers::go_def(3pm)go_def handler✨
GO::Handlers::go_ont(3pm)go_ont handler✨
GO::Handlers::go_xref(3pm)go_xref handler✨
GO::Handlers::godb_prestore(3pm)transforms OBO XML to GODB XML✨
GO::Handlers::obj(3pm)parses GO files into GO object model✨
GO::Handlers::obo_godb_flat(3pm)transforms OBO XML to MySQL tables✨
GO::Handlers::obo_html(3pm)OBO HTML handler✨
GO::Handlers::obo_text(3pm)OBO text handler✨
GO::Handlers::owl(3pm)writes OWL✨
GO::Handlers::owl_to_obo_text(3pm)private module✨
GO::Handlers::summary(3pm)summary about handlers✨
GO::Handlers::tbl(3pm)TBL handler✨
GO::Handlers::text_html(3pm)Text HTML handler✨
GO::Handlers::xsl_base(3pm)text HTML handler✨
GO::IO::Analysis(3pm)preliminary analysis object✨
GO::IO::Blast(3pm)Gene Ontology Blast Reports DEPRECATED✨
GO::IO::Dotty(3pm)Dotty diagrams from GO graphs✨
GO::IO::go_assoc(3pm)dump GO terms as OBD XML✨
GO::IO::ObanOwl(3pm)dump GO terms as xml✨
GO::IO::OBDXML(3pm)dump GO terms as xml✨
GO::IO::RDFXML(3pm)dump GO terms as xml✨
GO::Metadata::Panther(3pm)Species info for data used by Panther Clusters✨
GO::Model::Association(3pm)association between a GO term and a gene product✨
GO::Model::CrossProduct(3pm)intersection between class/term and list of anonymous subclass✨
GO::Model::DB(3pm)DB class✨
GO::Model::Evidence(3pm)evidence for an association✨
GO::Model::GeneProduct(3pm)gene product in a particular species✨
GO::Model::Graph(3pm)a collection of relationships over terms✨
GO::Model::GraphIterator(3pm)Graph iterator✨
GO::Model::GraphNodeInstance(3pm)a graph node located in a tree✨
GO::Model::LogicalDefinition(3pm)logical definition✨
GO::Model::Modification(3pm)cross reference to external database✨
GO::Model::Ontology(3pm)synonym for GO::Model::Graph✨
GO::Model::Path(3pm)path between two nodes✨
GO::Model::Property(3pm)model property✨
GO::Model::Relationship(3pm)relationship between two terms✨
GO::Model::Restriction(3pm)model restriction✨
GO::Model::Root(3pm)base class for all GO::Model objects✨
GO::Model::Seq(3pm)biological sequence✨
GO::Model::Species(3pm)gene product in a particular species✨
GO::Model::Term(3pm)a term or concept in an ontology✨
GO::Model::TreeIterator(3pm)wraps GO::Model::GraphIterator✨
GO::Model::Xref(3pm)cross reference to an external database✨
GO::ObjCache(3pm)private method✨
GO::ObjFactory(3pm)GO Object Factory✨
GO::Parser(3pm)parses all GO files formats and types✨
GO::Parsers::base_parser(3pm)base class for parsers✨
GO::Parsers::generic_tagval_parser(3pm)syntax parsing of GO .def flat files✨
GO::Parsers::go_assoc_parser(3pm)syntax parsing of GO gene-association flat files✨
GO::Parsers::go_def_parser(3pm)syntax parsing of GO .def flat files✨
GO::Parsers::go_ids_parser(3pm)syntax parsing of flat files containing GO IDs.✨
GO::Parsers::go_ont_parser(3pm)syntax parsing of GO .ontology flat files✨
GO::Parsers::go_xref_parser(3pm)syntax parsing of GO xref flat files (eg eg2go, metacyc2go)✨
GO::Parsers::locuslink_parser(3pm)Parser for LocusLink✨
GO::Parsers::mesh_parser(3pm)Parses Mesh ascii text files✨
GO::Parsers::mgi_assoc_parser(3pm)parses MGI gene assoc stanza files✨
GO::Parsers::ncbi_taxon_names_parser(3pm)OBO Flat file parser object✨
GO::Parsers::ncbi_taxonomy_parser(3pm)Parser for NCBI taxonomy✨
GO::Parsers::obj_emitter(3pm)Private class✨
GO::Parsers::obo_text_parser(3pm)OBO Flat file parser object✨
GO::Parsers::obo_xml_parser(3pm)Parses xml made from events✨
GO::Parsers::owl_parser(3pm)turns OWL XML into event stream✨
GO::Parsers::ParserEventNames(3pm)exports constants corresponding to XML✨
GO::Parsers::references_parser(3pm)syntax parsing of GO.refences files✨
GO::Parsers::refgenomes_parser(3pm)syntax parsing of GO .def flat files✨
GO::Parsers::unknown_format_parser(3pm)base class for parsers✨
GO::Parsers::xrf_abbs_parser(3pm)syntax parsing of GO xrf_abbs flat files✨
GO::Utils(3pm)utilities for GO modules rearrange() Usage : n/a Function : Rearranges named parameters to requested order. Returns : @params - an array of parameters in the requested order. Argument : $order : a…✨

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map2slim(1p)maps gene associations to a 'slim' ontology✨