biointerchange 1.0.1 → 1.0.2

data/lib/biointerchange/gvf1o.rb

@@ -1,1354 +0,0 @@
-module BioInterchange
-
-class GVF1O
-
-  # Either:
-  #   Establishes the landmark (e.g. a chromosome) on which a feature is located.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0004)
-  # Or:
-  #   Link to the landmark that establishes the coordinate system for the breakpoint.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0072)
-  def self.seqid
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') ]
-  end
-
-  # Either:
-  #   Strand of the feature.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0010)
-  # Or:
-  #   Strand of the breakpoint.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0083)
-  # Or:
-  #   Strand of a target -- if applicable.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0091)
-  def self.strand
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0010'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0083'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0091') ]
-  end
-
-  # Either:
-  #   Tag name/value pair attributes of a feature.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0012)
-  # Or:
-  #   Tag name/value pair attributes that are not captured by the GVF specification.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0152)
-  def self.attributes
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0012'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0152') ]
-  end
-
-  # Link out to the parent feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0014)
-  def self.parent
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0014')
-  end
-
-  # Relationship that describes which features belong to a feature set.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0015)
-  def self.contains
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0015')
-  end
-
-  # Either:
-  #   FALDO "Region" instance replacement for a feature's start, stop, strand properties.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0021)
-  # Or:
-  #   FALDO "Region" instance replacement for a breakpoint's start, stop, strand properties.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0079)
-  # Or:
-  #   FALDO "Region" instance replacement for a target's start, stop, strand  properties.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0090)
-  def self.region
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0021'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0079'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0090') ]
-  end
-
-  # NCBI Taxonomy Ontology "NCBITaxon_1" (or sub-classes) instance that denotes the species for a feature set.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0023)
-  def self.species
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0023')
-  end
-
-  # Specific information about the variant(s) of a feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0034)
-  def self.variant
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0034')
-  end
-
-  # Links to information about an individual.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0036)
-  def self.individual
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0036')
-  end
-
-  # Zygosity of a variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0038)
-  def self.zygosity
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0038')
-  end
-
-  # An effect of a particular feature variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0041)
-  def self.effect
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0041')
-  end
-
-  # Effect of a sequence alteration on a sequence feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0042)
-  def self.sequence_variant
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0042')
-  end
-
-  # A term that is describing the sequence feature that is being affected.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0043)
-  def self.feature_type
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0043')
-  end
-
-  # A coordinate range for ambiguous start coordinates.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0046)
-  def self.start_range
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0046')
-  end
-
-  # A coordinate range for ambiguous start coordinates.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0047)
-  def self.end_range
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0047')
-  end
-
-  # Denotes abstract chromosome representations for capturing variants that appear on the same chromosome of a polyploid organism.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0051)
-  def self.chromosome
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0051')
-  end
-
-  # Determines the genotype as observed in an individual.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0053)
-  def self.genotype
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0053')
-  end
-
-  # Either:
-  #   Properties that are directly associated with Feature class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0066)
-  # Or:
-  #   Properties that are directly associated with Feature class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0059)
-  def self.feature_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0059') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with SequencedIndividual class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0067)
-  # Or:
-  #   Properties that are directly associated with SequencedIndividual class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0065)
-  def self.sequencedindividual_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0067'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0065') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with Set class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0068)
-  # Or:
-  #   Properties that are directly associated with Set class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0063)
-  def self.set_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0068'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0063') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with Variant class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0069)
-  # Or:
-  #   Properties that are directly associated with Variant class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0060)
-  def self.variant_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0069'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0060') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with Effect class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0070)
-  # Or:
-  #   Properties that are directly associated with Effect class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0158)
-  def self.effect_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0158') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with Breakpoint class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0075)
-  # Or:
-  #   Properties that are directly associated with Breakpoint class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0071)
-  def self.breakpoint_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0071') ]
-  end
-
-  # Either:
-  #   A database cross-reference to associate a sequence alteration to its representation in another database.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0078)
-  # Or:
-  #   A database cross-reference to associate a structured pragma to a representation in another database.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0104)
-  def self.dbxref
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0078'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0104') ]
-  end
-
-  # Potential source or destination of zero-length sequence alterations.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0080)
-  def self.breakpoint
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0080')
-  end
-
-  # Either:
-  #   Properties that are directly associated with Target class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0089)
-  # Or:
-  #   Properties that are directly associated with Target class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0092)
-  def self.target_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0089'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0092') ]
-  end
-
-  # Either:
-  #   Properties that are directly associated with TechnologyPlatform class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0102)
-  # Or:
-  #   Properties that are directly associated with TechnologyPlatform class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0107)
-  def self.technologyplatform_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') ]
-  end
-
-  # Properties that are directly associated with DataSource class instances.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0103)
-  def self.datasource_properties
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103')
-  end
-
-  # Either:
-  #   Properties describing structured pragma properties.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0112)
-  # Or:
-  #   Properties describing structured pragma properties.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0113)
-  def self.structuredpragma_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') ]
-  end
-
-  # Types of reads produced by the platform.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0119)
-  def self.read_type
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0119')
-  end
-
-  # Datatype of this data source.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0120)
-  def self.data_type
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0120')
-  end
-
-  # Technology platform that was used to derive the feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0121)
-  def self.technology_platform
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0121')
-  end
-
-  # Data source origin of the feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0122)
-  def self.data_source
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0122')
-  end
-
-  # Used scoring method.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0123)
-  def self.score_method
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0123')
-  end
-
-  # Further information about the algorithm/methodologies used.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0124)
-  def self.source_method
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0124')
-  end
-
-  # Further information about an individual's phenotype. Applies only to single individual sets.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0125)
-  def self.phenotype_description
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0125')
-  end
-
-  # Either:
-  #   Further information about the associated attribute(s).
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0126)
-  # Or:
-  #   Further information about the associated attribute(s).
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0127)
-  # Or:
-  #   Further information about the associated attribute(s).
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0129)
-  # Or:
-  #   Further information about the associated attribute(s).
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0130)
-  # Or:
-  #   Further information about the associated attribute(s).
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0131)
-  def self.attribute_method
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0126'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0127'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0129'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0130'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0131') ]
-  end
-
-  # Either:
-  #   Properties about Attribute instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0128)
-  # Or:
-  #   Properties that are directly associated with Attribute class instances.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0064)
-  def self.attribute_properties
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0128'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0064') ]
-  end
-
-  # Denotes the sex of the sequenced individual for single-individual sets.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0147)
-  def self.sex
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0147')
-  end
-
-  # Denotes the source of genomic data (on a cell-type level).
-  # (http://www.biointerchange.org/gvf1o#GVF1_0148)
-  def self.genomic_source
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0148')
-  end
-
-  # Explicit link-out to one or more ontologies that have been used for describing features. This is a meta comment about the URIs that link out to SO/SOFA or other ontologies.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0150)
-  def self.feature_ontology
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0150')
-  end
-
-  # Identifies the target that the features aligns to.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0155)
-  def self.target
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0155')
-  end
-
-  # A free text qualifier that describes the algorithm or operating procedure that generated this feature.  For example, the name of the software that generated this feature or a database name.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0005)
-  def self.source
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0005')
-  end
-
-  # Type of the feature, which is either an entry the "lite" version of the Sequence Ontology (SOFA) or a child entry of sequence_feature (SO:0000110) of the full Sequence Ontology (SO).
-  # (http://www.biointerchange.org/gvf1o#GVF1_0006)
-  def self.type
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006')
-  end
-
-  # Either:
-  #   Start coordinate of the feature on the seqid landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0007)
-  # Or:
-  #   A coordinate that defines the start of an ambiguous coordinate range.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0048)
-  # Or:
-  #   Start coordinate of the feature on the seqid landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0073)
-  # Or:
-  #   Start coordinate of the target.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0094)
-  # Or:
-  #   Genomic start coordinate of the landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0138)
-  def self.start
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0007'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0048'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0073'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0094'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0138') ]
-  end
-
-  # Either:
-  #   End coordinate of the feature on the seqid landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0008)
-  # Or:
-  #   A coordinate that defines the end of an ambiguous coordinate range.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0049)
-  # Or:
-  #   End coordinate of the feature on the seqid landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0074)
-  # Or:
-  #   End coordinate of the target.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0095)
-  # Or:
-  #   Genomic end coordinate of the landmark.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0139)
-  def self.end
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0008'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0049'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0074'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0095'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0139') ]
-  end
-
-  # Score of the feature. For example, an E-value for sequence similarity features or a P-value for ab initio gene prediction features.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0009)
-  def self.score
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0009')
-  end
-
-  # Either:
-  #   Tag name of a feature attribute.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0013)
-  # Or:
-  #   Tag name of an user defined structured attribute.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0154)
-  def self.tag
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0013'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0154') ]
-  end
-
-  # Version of the GVF specification that defines the feature set contents.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0022)
-  def self.gvf_version
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0022')
-  end
-
-  # Name of a genome assembly build that denotes the provenance of features in a feature set. For example, 'NCBI 36' or 'FlyBase r4.1'.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0024)
-  def self.build
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0024')
-  end
-
-  # All sequence variations at a locus -- including the reference sequence when appropriate (for example, when the locus is heterozygous). If the feature is on the minus strand, then the sequence is the reverse-compliment of the reference genome for these coordinates.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0025)
-  def self.variant_seq
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0025')
-  end
-
-  # Either:
-  #   A unique identifier for the feature within the feature set.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0026)
-  # Or:
-  #   ID that uniquely establishes the Landmark's identity within a Set.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0137)
-  def self.id
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0026'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0137') ]
-  end
-
-  # Secondary name of a feature, which can be HGVS/ISCN nomenclature names, but not cross-references to databases (e.g. dbSNP, OMIM) which should use the dbxref property.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0027)
-  def self.alias
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0027')
-  end
-
-  # Sequence from the reference genome.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0031)
-  def self.reference_seq
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0031')
-  end
-
-  # Number of reads that are supporting this variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0032)
-  def self.variant_reads
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0032')
-  end
-
-  # Total number of reads.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0037)
-  def self.total_reads
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0037')
-  end
-
-  # Frequency of a variant in a population.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0039)
-  def self.variant_freq
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0039')
-  end
-
-  # Features that are affected by this sequence alteration effect. This can be an external feature identifier, such as an Ensembl gene/transcript identifier.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0044)
-  def self.feature
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0044')
-  end
-
-  # Either:
-  #   Unclear from GVF specification.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0050)
-  # Or:
-  #   Indicates whether this particular is phased. Used to encode ##phased-genotypes statements.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0101)
-  def self.phased
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0050'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0101') ]
-  end
-
-  # Describes the codon that overlaps this variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0054)
-  def self.variant_codon
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0054')
-  end
-
-  # Describes the codon from the reference sequence whose coordinates overlap with this variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0055)
-  def self.reference_codon
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0055')
-  end
-
-  # Amino acid that overlaps with the variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0056)
-  def self.variant_aa
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0056')
-  end
-
-  # Amino acid in the reference genome that overlaps with a variant's genome coordinates.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0057)
-  def self.reference_aa
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0057')
-  end
-
-  # Properties that are directly associated with Range class instances.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0061)
-  def self.range_properties
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0061')
-  end
-
-  # Sequence context (positive strand) of a feature on the 5' end.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0076)
-  def self.a_context
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0076')
-  end
-
-  # Version of the GFF specification that defines the feature set contents apart from GVF related definitions.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0081)
-  def self.gff_version
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0081')
-  end
-
-  # Creation date of the GVF file that this set stems from.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0082)
-  def self.file_date
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0082')
-  end
-
-  # ID or accession of the target alignment.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0093)
-  def self.target_id
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0093')
-  end
-
-  # A cross-reference to an ontology term that is associated with a feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0096)
-  def self.ontology_term
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0096')
-  end
-
-  # An arbitrary comment. Free text.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0105)
-  def self.comment
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0105')
-  end
-
-  # Type of technology used to gather the variant data. Unrestricted range due to open specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0106)
-  def self.platform_class
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0106')
-  end
-
-  # Sequencer or other machine used to collect the variant data. Unrestricted range due to open specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0108)
-  def self.platform_name
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0108')
-  end
-
-  # Undocumented in GVF specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0132)
-  def self.read_length
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0132')
-  end
-
-  # Undocumented in GVF specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0133)
-  def self.read_pair_span
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0133')
-  end
-
-  # Undocumented in GVF specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0134)
-  def self.average_coverage
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0134')
-  end
-
-  # Properties that are directly associated with Landmark class instances.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0136)
-  def self.landmark_properties
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136')
-  end
-
-  # Version of the GVF file that this set stems from.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0149)
-  def self.file_version
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0149')
-  end
-
-  # Properties that are directly associated with StructuredAttribute class instances.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0153)
-  def self.structuredattribute_properties
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0153')
-  end
-
-  # Either:
-  #   Sequence associated with this feature, if it has been specified using a FASTA string.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0156)
-  # Or:
-  #   Sequence associated with this feature, if it has been specified using a FASTA string.
-  #   (http://www.biointerchange.org/gvf1o#GVF1_0157)
-  def self.sequence
-    return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0156'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0157') ]
-  end
-
-  # Set of genomic sequence features, whose identifiers are unique within the set.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0001)
-  def self.Set
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0001')
-  end
-
-  # A genomic sequence feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0002)
-  def self.Feature
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0002')
-  end
-
-  # Representation of attribute tag/value pairs that are not covered by specific classes such as Effect or Variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0003)
-  def self.Attribute
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0003')
-  end
-
-  # Class describing a genomic strand. Instances of the class (individuals) are used to denote forward-/reverse-strands, etc.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0016)
-  def self.Strand
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0016')
-  end
-
-  # Describing specific alterations of a feature.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0033)
-  def self.Variant
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0033')
-  end
-
-  # Aggregated sequencing information for a particular individual.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0035)
-  def self.SequencedIndividual
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0035')
-  end
-
-  # Describing the effect of a feature variant.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0040)
-  def self.Effect
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0040')
-  end
-
-  # Describe ambiguity in either start or end coordinates.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0045)
-  def self.Range
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0045')
-  end
-
-  # An abstract representation of a chromosome to represent ploidy.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0052)
-  def self.Chromosome
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0052')
-  end
-
-  # Describes the source or destination of a zero-length sequence alteration.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0058)
-  def self.Breakpoint
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0058')
-  end
-
-  # Denotes the zygosity of alleles.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0084)
-  def self.Zygosity
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0084')
-  end
-
-  # Indicates a feature's "target" of a nucleotide-to-nucleotide or protein-to-nucleotide alignment.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0088)
-  def self.Target
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0088')
-  end
-
-  # Details about the sequencing/microarray technology used to gather the data in a set.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0097)
-  def self.TechnologyPlatform
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0097')
-  end
-
-  # Provides information about the source of the data. For example, it can link out to actual sequences associated with the Feature individuals in a Set.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0098)
-  def self.DataSource
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0098')
-  end
-
-  # Information about the used scoring algorithm or method.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0099)
-  def self.Method
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0099')
-  end
-
-  # Additional information about an individual's phenotype.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0100)
-  def self.PhenotypeDescription
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0100')
-  end
-
-  # Type of reads obtained for a given technology platform.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0109)
-  def self.ReadType
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0109')
-  end
-
-  # Determines the datatype of a variant sequence.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0114)
-  def self.DataType
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0114')
-  end
-
-  # A landmark that establishes the coordinate system for features.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0135)
-  def self.Landmark
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0135')
-  end
-
-  # For single individual sets, the Sex class' OWL-individuals can be used to specify the sex of the sequenced (real-life) individuals.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0140)
-  def self.Sex
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0140')
-  end
-
-  # An enumerated class for determining the genomic source (cell type) of sequenced data.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0141)
-  def self.GenomicSource
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0141')
-  end
-
-  # Representation of attribute tag/value pairs that are specific to particular structured attributes, but which are not covered by the GVF specification.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0151)
-  def self.StructuredAttribute
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0151')
-  end
-
-  # Location on the positive (forward) strand.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0017)
-  def self.Positive
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0017')
-  end
-
-  # Location on the negative (reverse) strand.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0018)
-  def self.Negative
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0018')
-  end
-
-  # Strand was not determined, which leaves it open whether the location is on the positive (forward) or negative (reverse) strand.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0019)
-  def self.UnknownStrand
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0019')
-  end
-
-  # Strand is not applicable.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0020)
-  def self.NotStranded
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0020')
-  end
-
-  # Denotes heterozygous alleles.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0085)
-  def self.Heterozygous
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0085')
-  end
-
-  # Denotes homozygous alleles.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0086)
-  def self.Homozygous
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0086')
-  end
-
-  # Denotes hemizygous alleles.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0087)
-  def self.Hemizygous
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0087')
-  end
-
-  # Denotes reads that are fragments.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0110)
-  def self.Fragment
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0110')
-  end
-
-  # Denotes reads that are pairs.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0111)
-  def self.Pair
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0111')
-  end
-
-  # Denotes a DNA sequence.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0115)
-  def self.DNASequence
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0115')
-  end
-
-  # Denotes an RNA sequence.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0116)
-  def self.RNASequence
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0116')
-  end
-
-  # Denotes a DNA microarray probe.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0117)
-  def self.DNAMicroarray
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0117')
-  end
-
-  # Denotes an array-comparative genomic hybridization.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0118)
-  def self.ArrayComparativeGenomicHybridization
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0118')
-  end
-
-  # Denotes that a Set contains features of a female.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0142)
-  def self.Female
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0142')
-  end
-
-  # Denotes that a Set contains features of a male.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0143)
-  def self.Male
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0143')
-  end
-
-  # Denotes that a set contains features of prenatal cells.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0144)
-  def self.Prenatal
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0144')
-  end
-
-  # Denotes that a set contains features of germline cells.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0145)
-  def self.Germline
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0145')
-  end
-
-  # Denotes that a set contains features of somatic cells.
-  # (http://www.biointerchange.org/gvf1o#GVF1_0146)
-  def self.Somatic
-    return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0146')
-  end
-
-  # Determines whether the given URI is an object property.
-  #
-  # +uri+:: URI that is tested for being an object property
-  def self.is_object_property?(uri)
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0010') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0012') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0014') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0015') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0021') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0023') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0034') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0036') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0038') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0041') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0042') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0043') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0046') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0047') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0051') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0053') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0067') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0068') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0069') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0078') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0079') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0080') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0083') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0089') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0090') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0091') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0104') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0119') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0120') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0121') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0122') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0123') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0124') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0125') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0126') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0127') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0128') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0129') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0130') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0131') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0147') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0148') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0150') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0152') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0155') then
-      return true
-    end
-    return false
-  end
-
-  # Determines whether the given URI is a datatype property.
-  #
-  # +uri+:: URI that is tested for being a datatype property
-  def self.is_datatype_property?(uri)
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0005') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0007') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0008') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0009') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0013') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0022') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0024') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0025') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0026') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0027') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0031') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0032') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0037') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0039') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0044') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0048') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0049') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0050') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0054') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0055') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0056') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0057') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0059') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0060') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0061') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0063') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0064') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0065') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0071') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0073') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0074') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0076') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0077') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0081') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0082') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0092') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0093') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0094') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0095') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0096') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0101') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0105') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0106') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0108') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0132') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0133') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0134') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0137') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0138') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0139') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0149') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0153') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0154') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0156') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0157') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0158') then
-      return true
-    end
-    return false
-  end
-
-  # Determines whether the given URI is a class.
-  #
-  # +uri+:: URI that is tested for being a class
-  def self.is_class?(uri)
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0001') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0002') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0003') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0016') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0033') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0035') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0040') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0045') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0052') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0058') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0084') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0088') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0097') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0098') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0099') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0100') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0109') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0114') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0135') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0140') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0141') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0151') then
-      return true
-    end
-    return false
-  end
-
-  # Determines whether the given URI is a named individual.
-  #
-  # +uri+:: URI that is tested for being a named individual
-  def self.is_named_individual?(uri)
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0017') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0018') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0019') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0020') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0085') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0086') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0087') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0110') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0111') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0115') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0116') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0117') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0118') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0142') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0143') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0144') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0145') then
-      return true
-    end
-    if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0146') then
-      return true
-    end
-    return false
-  end
-
-  # Returns only those URIs that fall under a designated parent URI.
-  #
-  # +uris+:: Set of URIs that are tested whether they have the given parent URI.
-  # +parent+:: Parent URI.
-  def self.with_parent(uris, parent)
-    return uris.select { |uri| has_parent?(uri, parent) }
-  end
-
-  # Recursively tries to determine the parent for a given URI.
-  #
-  # +uri+:: URI that is tested for whether it has the given parent URI.
-  # +parent+:: Parent URI.
-  def self.has_parent?(uri, parent)
-    if @@parent_properties.has_key?(uri) then
-      if @@parent_properties[uri] == parent then
-        return true
-      end
-      return has_parent?(@@parent_properties[uri], parent)
-    end
-    return false
-  end
-
-private
-  @@parent_properties = { RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0010') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0012') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0014') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0015') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0068') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0021') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0023') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0068') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0034') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0036') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0038') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0069') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0041') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0069') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0042') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0043') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0046') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0047') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0051') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0067') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0053') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0069') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0078') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0079') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0080') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0083') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0090') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0089') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0091') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0089') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0104') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0119') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0120') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0121') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0066') , 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