Search results for "Bio::Ontology::Ontology"
Bio::Ontology::Ontology - standard implementation of an Ontology
This is a no-frills implementation of Bio::Ontology::OntologyI. The query functions are implemented by delegation to an OntologyEngineI implementation....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::Ontology::Term - implementation of the interface for ontology terms
- Bio::Ontology::Path - a path for an ontology term graph
- Bio::Ontology::TermI - interface for ontology terms
- 38 more results from BioPerl »
FAST::Bio::Ontology::Ontology - standard implementation of an Ontology
This is a no-frills implementation of FAST::Bio::Ontology::OntologyI. The query functions are implemented by delegation to an OntologyEngineI implementation....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::Ontology::Term - implementation of the interface for ontology terms
- FAST::Bio::Ontology::TermI - interface for ontology terms
- FAST::Bio::Ontology::OBOEngine - An Ontology Engine for OBO style flat file format from the Gene Ontology Consortium
- 31 more results from FAST »
Bio::DB::BioSQL::OntologyAdaptor - DB Adaptor for Ontology objects
DB adaptor for Bio::Ontology::OntologyI compliant objects....
CJFIELDS/BioPerl-DB-1.006900 - 15 Apr 2011 19:35:57 UTC - Search in distribution- load_ontology.pl
- add-term-annot.pl
- Bio::DB::Query::BioQuery - Object representing a query on a bioperldb
- 12 more results from BioPerl-DB »
Bio::MAGE::Description::OntologyEntry - Class for the MAGE-OM API
From the MAGE-OM documentation for the "OntologyEntry" class: A single entry from an ontology or a controlled vocabulary. For instance, category could be 'species name', value could be 'homo sapiens' and ontology would be taxonomy database, NCBI....
JASONS/Bio-MAGE-20030502.3 - 14 May 2007 10:56:09 UTC - Search in distribution- Bio::MAGE::Describable - Class for the MAGE-OM API
- Bio::MAGE::BioSequence::BioSequence - Class for the MAGE-OM API
- Bio::MAGE::Description::Description - Class for the MAGE-OM API
MAGE/Tools/MGEDOntologyPropertyEntry.pm
JASONS/Bio-MAGE-Utils-20030502.0
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14 May 2007 10:52:47 UTC
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GO::AppHandle - Gene Ontology Data API handle
This is a module for accessing Gene Ontology data sources, e.g the GO relational database. It defines a set of methods that provide a consistent interface independent of the way the GO data is stored. For an explanation of the GO project, please visi...
SJCARBON/go-db-perl-0.04 - 21 Dec 2009 21:56:44 UTC - Search in distribution
Bio::DB::GFF::Aggregator::gene - Sequence Ontology Geene
Bio::DB::GFF::Aggregator::gene is identical to so_transcript, but is used in those cases where you would like the name of the aggregated feature to be "gene" rather than "processed_transcript". It aggregates raw "exon," "CDS", "five_prime_UTR", "thre...
CJFIELDS/Bio-DB-GFF-1.7.4 - 08 Jan 2020 20:41:58 UTC - Search in distribution- Bio::DB::GFF::Aggregator::so_transcript - Sequence Ontology Transcript
- Bio::DB::GFF::Segment - Simple DNA segment object
- Bio::DB::GFF::Aggregator::match - Match aggregator
- 2 more results from Bio-DB-GFF »
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 - Search in distribution- go2fmt.pl
- GO::Parser - parses all GO files formats and types
Bio::Graphics::Glyph::so_transcript - The sequence ontology transcript glyph
This is a sequence-ontology compatible glyph, which works hand-in-hand with the so_transcript aggregator in BioPerl. This glyph is identical to "processed_transcript," which is described in detail in Bio::Graphics::Glyph::processed_transcript....
CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution- Bio::Graphics::Glyph::gene - A GFF3-compatible gene glyph
- Bio::Graphics::Glyph::rainbow_gene - A GFF3-compatible gene glyph
- Bio::Graphics::Glyph::processed_transcript - The sequence ontology transcript glyph
Bio::Das - Interface to Distributed Annotation System
Bio::Das provides access to genome sequencing and annotation databases that export their data in Distributed Annotation System (DAS) format version 1.5. This system is described at http://biodas.org. Both unencrypted (http:) and SSL-encrypted (https:...
LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC - Search in distribution- Bio::Das::TypeHandler - Utilities for handling types
ONTO-PERL - PERL modules for OBO-formatted ontologies
ONTO-PERL a collection of PERL modules for dealing with OBO-formatted ontologies (like the Gene Ontology). This code distribution gathers object-oriented modules (to handle ontology elements such as a Term, a Relationship, a Synonym, and so forth), s...
EASR/ONTO-PERL-1.45 - 30 Oct 2015 16:04:26 UTC - Search in distribution
Test::Chado - Unit testing for chado database modules and applications
SIDD/Test-Chado-v4.1.1
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16 Jul 2014 16:58:16 UTC
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Alvis::NLPPlatform - Perl extension for linguistically annotating XML documents in Alvis
This module is the main part of the Alvis NLP platform. It provides overall methods for the linguistic annotation of web documents. Linguistic annotations depend on the configuration variables and dependencies between linguistic steps. Input document...
THHAMON/Alvis-NLPPlatform-0.6 - 16 Apr 2008 17:19:55 UTC - Search in distribution
MOBY::CommonSubs - a set of exportable subroutines that are useful in clients and services to deal with the input/output from MOBY Services
CommonSubs are used to do various manipulations of MOBY service-invocation and response messages. It is useful both Client and Service side and will ensure that the message structure is valid as per the latest version of the MOBY API. It DOES NOT con...
EKAWAS/MOBY-1.16 - 29 Mar 2015 13:34:52 UTC - Search in distribution
pod::CONFIGURE_HOWTO
LDS/GBrowse-2.56
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15 Jan 2017 21:29:11 UTC
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- pod::README-chado
- Bio::Graphics::Browser::Plugin - Base class for gbrowse plugins.
- Bio::Graphics::Browser2::Plugin - Base class for gbrowse plugins.
Bundle::BioPerl - A bundle to install external CPAN modules used by BioPerl 1.5.2
The BioPerl distribution from http://bioperl.org contains code and modules that may use or require additional 'external' perl modules for advanced functionality. Many of the external modules are not contained within the standard Perl distribution. Th...
CJFIELDS/Bundle-BioPerl-2.1.9 - 16 Jan 2015 20:05:40 UTC - Search in distribution
Bio::DB::Das::Chado - DAS-style access to a chado database
Bio::DB::Das::Chado allows DAS style access to a Chado database, getting SeqFeatureI-compliant BioPerl objects and allowing GBrowse to access a Chado database directly....
SCAIN/Bio-DB-Das-Chado-0.35a - 07 Apr 2015 23:02:17 UTC - Search in distribution