biointerchange 0.1.3 → 0.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/README.md +17 -0
- data/VERSION +1 -1
- data/generators/GOxrefify.rb +41 -0
- data/generators/rdfxml.rb +6 -4
- data/lib/biointerchange/core.rb +94 -20
- data/lib/biointerchange/genomics/gff3_feature_set.rb +11 -3
- data/lib/biointerchange/genomics/gff3_pragmas.rb +3 -3
- data/lib/biointerchange/genomics/gff3_rdf_ntriples.rb +217 -12
- data/lib/biointerchange/genomics/gff3_reader.rb +78 -20
- data/lib/biointerchange/genomics/gvf_reader.rb +9 -3
- data/lib/biointerchange/gff3o.rb +69 -55
- data/lib/biointerchange/goxref.rb +867 -0
- data/lib/biointerchange/gvf1o.rb +546 -82
- data/lib/biointerchange/textmining/text_mining_reader.rb +9 -0
- data/spec/gff3_rdfwriter_spec.rb +1 -1
- data/spec/gvf_rdfwriter_spec.rb +1 -1
- data/spec/text_mining_pdfx_xml_reader_spec.rb +3 -0
- data/spec/text_mining_pubannos_json_reader_spec.rb +4 -1
- data/supplemental/java/biointerchange/pom.xml +1 -1
- data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/GFF3O.java +93 -125
- data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/GVF1O.java +304 -205
- data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/SIO.java +4044 -4290
- data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/SOFA.java +3 -3
- data/supplemental/python/biointerchange/gff3o.py +1 -89
- data/supplemental/python/biointerchange/gvf1o.py +129 -147
- data/supplemental/python/biointerchange/sio.py +817 -46
- data/supplemental/python/biointerchange/sofa.py +543 -543
- data/supplemental/python/setup.py +1 -1
- data/web/ontologies.html +1 -3
- metadata +7 -2
data/lib/biointerchange/gvf1o.rb
CHANGED
@@ -2,6 +2,22 @@ module BioInterchange
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class GVF1O
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# Either:
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# Establishes the landmark (e.g. a chromosome) on which a feature is located.
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# (http://www.biointerchange.org/gvf1o#GVF1_0004)
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# Or:
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# Link to the landmark that establishes the coordinate system for the breakpoint.
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# (http://www.biointerchange.org/gvf1o#GVF1_0072)
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def self.seqid
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') ]
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end
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# 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).
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# (http://www.biointerchange.org/gvf1o#GVF1_0006)
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def self.type
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006')
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end
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# Either:
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# Strand of the feature.
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# (http://www.biointerchange.org/gvf1o#GVF1_0010)
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@@ -15,10 +31,14 @@ class GVF1O
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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') ]
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end
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#
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#
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# Either:
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# Tag name/value pair attributes of a feature.
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# (http://www.biointerchange.org/gvf1o#GVF1_0012)
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# Or:
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# Tag name/value pair attributes that are not captured by the GVF specification.
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# (http://www.biointerchange.org/gvf1o#GVF1_0152)
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def self.attributes
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0012')
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0012'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0152') ]
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end
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# Link out to the parent feature.
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@@ -90,7 +110,7 @@ class GVF1O
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# Features that are affected by this sequence alteration effect.
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# (http://www.biointerchange.org/gvf1o#GVF1_0044)
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def self.
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def self.feature
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0044')
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end
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@@ -174,10 +194,14 @@ class GVF1O
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0071') ]
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end
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#
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#
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# Either:
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# A database cross-reference to associate a sequence alteration to its representation in another database.
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# (http://www.biointerchange.org/gvf1o#GVF1_0078)
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# Or:
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# A database cross-reference to associate a structured pragma to a representation in another database.
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# (http://www.biointerchange.org/gvf1o#GVF1_0104)
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def self.dbxref
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0078')
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0078'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0104') ]
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end
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# Potential source or destination of zero-length sequence alterations.
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@@ -196,14 +220,125 @@ class GVF1O
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0089'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0092') ]
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end
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# A cross-reference to an ontology term that is associated with a feature.
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# (http://www.biointerchange.org/gvf1o#GVF1_0096)
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def self.ontology_term
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0096')
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end
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# Either:
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#
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# (http://www.biointerchange.org/gvf1o#
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# Properties that are directly associated with TechnologyPlatform class instances.
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# (http://www.biointerchange.org/gvf1o#GVF1_0102)
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# Or:
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#
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# (http://www.biointerchange.org/gvf1o#
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def self.
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#
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# Properties that are directly associated with TechnologyPlatform class instances.
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# (http://www.biointerchange.org/gvf1o#GVF1_0107)
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def self.technologyplatform_properties
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') ]
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end
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# Properties that are directly associated with DataSource class instances.
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# (http://www.biointerchange.org/gvf1o#GVF1_0103)
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def self.datasource_properties
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103')
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end
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# Either:
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# Properties describing structured pragma properties.
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# (http://www.biointerchange.org/gvf1o#GVF1_0112)
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# Or:
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# Properties describing structured pragma properties.
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# (http://www.biointerchange.org/gvf1o#GVF1_0113)
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def self.structuredpragma_properties
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') ]
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end
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# Types of reads produced by the platform.
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# (http://www.biointerchange.org/gvf1o#GVF1_0119)
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def self.read_type
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0119')
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end
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# Datatype of this data source.
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# (http://www.biointerchange.org/gvf1o#GVF1_0120)
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def self.data_type
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0120')
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end
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# Technology platform that was used to derive the feature.
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# (http://www.biointerchange.org/gvf1o#GVF1_0121)
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def self.technology_platform
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0121')
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end
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# Data source origin of the feature.
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# (http://www.biointerchange.org/gvf1o#GVF1_0122)
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def self.data_source
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0122')
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end
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# Used scoring method.
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# (http://www.biointerchange.org/gvf1o#GVF1_0123)
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def self.score_method
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0123')
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end
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# Further information about the algorithm/methodologies used.
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# (http://www.biointerchange.org/gvf1o#GVF1_0124)
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def self.source_method
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0124')
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end
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# Further information about an individual's phenotype. Applies only to single individual sets.
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# (http://www.biointerchange.org/gvf1o#GVF1_0125)
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def self.phenotype_description
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0125')
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end
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# Either:
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# Further information about the associated attribute(s).
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# (http://www.biointerchange.org/gvf1o#GVF1_0126)
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# Or:
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# Further information about the associated attribute(s).
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# (http://www.biointerchange.org/gvf1o#GVF1_0127)
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# Or:
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# Further information about the associated attribute(s).
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# (http://www.biointerchange.org/gvf1o#GVF1_0129)
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# Or:
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# Further information about the associated attribute(s).
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# (http://www.biointerchange.org/gvf1o#GVF1_0130)
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# Or:
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# Further information about the associated attribute(s).
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# (http://www.biointerchange.org/gvf1o#GVF1_0131)
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def self.attribute_method
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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') ]
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end
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# Either:
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# Properties about Attribute instances.
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# (http://www.biointerchange.org/gvf1o#GVF1_0128)
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# Or:
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# Properties that are directly associated with Attribute class instances.
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# (http://www.biointerchange.org/gvf1o#GVF1_0064)
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def self.attribute_properties
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0128'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0064') ]
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end
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# Denotes the sex of the sequenced individual for single-individual sets.
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# (http://www.biointerchange.org/gvf1o#GVF1_0147)
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def self.sex
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0147')
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end
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# Denotes the source of genomic data (on a cell-type level).
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# (http://www.biointerchange.org/gvf1o#GVF1_0148)
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def self.genomic_source
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0148')
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end
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# 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.
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# (http://www.biointerchange.org/gvf1o#GVF1_0150)
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def self.feature_ontology
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0150')
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end
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# 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.
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0005')
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end
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# Type of the feature, which is either a term from the "lite" version of the Sequence Ontology (SOFA), a term from the full Sequence Ontology (SO) that is a child of sequence_feature (SO:0000110), or a SOFA or SO accession number.
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# (http://www.biointerchange.org/gvf1o#GVF1_0006)
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def self.type
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006')
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end
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# Either:
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# Start coordinate of the feature on the seqid landmark.
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# (http://www.biointerchange.org/gvf1o#GVF1_0007)
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# Or:
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# Start coordinate of the target.
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# (http://www.biointerchange.org/gvf1o#GVF1_0094)
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# Or:
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# Genomic start coordinate of the landmark.
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# (http://www.biointerchange.org/gvf1o#GVF1_0138)
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def self.start
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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') ]
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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') ]
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end
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# Either:
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# Or:
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# End coordinate of the target.
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# (http://www.biointerchange.org/gvf1o#GVF1_0095)
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# Or:
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# Genomic end coordinate of the landmark.
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# (http://www.biointerchange.org/gvf1o#GVF1_0139)
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def self.end
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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') ]
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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') ]
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end
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# Score of the feature. For example, an E-value for sequence similarity features or a P-value for ab initio gene prediction features.
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0009')
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end
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#
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#
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# Either:
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# Tag name of a feature attribute.
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# (http://www.biointerchange.org/gvf1o#GVF1_0013)
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# Or:
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# Tag name of an user defined structured attribute.
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# (http://www.biointerchange.org/gvf1o#GVF1_0154)
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def self.tag
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0013')
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return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0013'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0154') ]
|
263
402
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end
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264
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|
265
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# Version of the GVF specification that defines the feature set contents.
|
@@ -280,10 +419,14 @@ class GVF1O
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0025')
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end
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|
283
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-
#
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284
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-
#
|
422
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+
# Either:
|
423
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+
# A unique identifier for the feature within the feature set.
|
424
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0026)
|
425
|
+
# Or:
|
426
|
+
# ID that uniquely establishes the Landmark's identity within a Set.
|
427
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0137)
|
285
428
|
def self.id
|
286
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0026')
|
429
|
+
return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0026'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0137') ]
|
287
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end
|
288
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|
289
432
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# 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.
|
@@ -292,18 +435,6 @@ class GVF1O
|
|
292
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return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0027')
|
293
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end
|
294
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|
|
295
|
-
# Name of an external database. For example, "dbSNP" or "OMIM".
|
296
|
-
# (http://www.biointerchange.org/gvf1o#GVF1_0029)
|
297
|
-
def self.name
|
298
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0029')
|
299
|
-
end
|
300
|
-
|
301
|
-
# External database identifier. For example, for dbSNP, this identifier could be "rs3131969".
|
302
|
-
# (http://www.biointerchange.org/gvf1o#GVF1_0030)
|
303
|
-
def self.xref
|
304
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0030')
|
305
|
-
end
|
306
|
-
|
307
438
|
# Sequence from the reference genome.
|
308
439
|
# (http://www.biointerchange.org/gvf1o#GVF1_0031)
|
309
440
|
def self.reference_seq
|
@@ -328,10 +459,14 @@ class GVF1O
|
|
328
459
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0039')
|
329
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|
end
|
330
461
|
|
331
|
-
#
|
332
|
-
#
|
462
|
+
# Either:
|
463
|
+
# Unclear from GVF specification.
|
464
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0050)
|
465
|
+
# Or:
|
466
|
+
# Indicates whether this particular is phased. Used to encode ##phased-genotypes statements.
|
467
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0101)
|
333
468
|
def self.phased
|
334
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0050')
|
469
|
+
return [ RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0050'), RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0101') ]
|
335
470
|
end
|
336
471
|
|
337
472
|
# Describes the codon that overlaps this variant.
|
@@ -364,18 +499,6 @@ class GVF1O
|
|
364
499
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0061')
|
365
500
|
end
|
366
501
|
|
367
|
-
# Properties that are directly associated with DBXRef class instances.
|
368
|
-
# (http://www.biointerchange.org/gvf1o#GVF1_0062)
|
369
|
-
def self.dbxref_properties
|
370
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0062')
|
371
|
-
end
|
372
|
-
|
373
|
-
# Properties that are directly associated with Attribute class instances.
|
374
|
-
# (http://www.biointerchange.org/gvf1o#GVF1_0064)
|
375
|
-
def self.attribute_properties
|
376
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0064')
|
377
|
-
end
|
378
|
-
|
379
502
|
# Sequence context (positive strand) of a feature on the 5' end.
|
380
503
|
# (http://www.biointerchange.org/gvf1o#GVF1_0076)
|
381
504
|
def self.a_context
|
@@ -400,6 +523,60 @@ class GVF1O
|
|
400
523
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0093')
|
401
524
|
end
|
402
525
|
|
526
|
+
# An arbitrary comment. Free text.
|
527
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0105)
|
528
|
+
def self.comment
|
529
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0105')
|
530
|
+
end
|
531
|
+
|
532
|
+
# Type of technology used to gather the variant data. Unrestricted range due to open specification.
|
533
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0106)
|
534
|
+
def self.platform_class
|
535
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0106')
|
536
|
+
end
|
537
|
+
|
538
|
+
# Sequencer or other machine used to collect the variant data. Unrestricted range due to open specification.
|
539
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0108)
|
540
|
+
def self.platform_name
|
541
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0108')
|
542
|
+
end
|
543
|
+
|
544
|
+
# Undocumented in GVF specification.
|
545
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0132)
|
546
|
+
def self.read_length
|
547
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0132')
|
548
|
+
end
|
549
|
+
|
550
|
+
# Undocumented in GVF specification.
|
551
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0133)
|
552
|
+
def self.read_pair_span
|
553
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0133')
|
554
|
+
end
|
555
|
+
|
556
|
+
# Undocumented in GVF specification.
|
557
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0134)
|
558
|
+
def self.average_coverage
|
559
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0134')
|
560
|
+
end
|
561
|
+
|
562
|
+
# Properties that are directly associated with Landmark class instances.
|
563
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0136)
|
564
|
+
def self.landmark_properties
|
565
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136')
|
566
|
+
end
|
567
|
+
|
568
|
+
# Version of the GVF file that this set stems from.
|
569
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0149)
|
570
|
+
def self.file_version
|
571
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0149')
|
572
|
+
end
|
573
|
+
|
574
|
+
# Properties that are directly associated with StructuredAttribute class instances.
|
575
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0153)
|
576
|
+
def self.structuredattribute_properties
|
577
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0153')
|
578
|
+
end
|
579
|
+
|
403
580
|
# Set of genomic sequence features, whose identifiers are unique within the set.
|
404
581
|
# (http://www.biointerchange.org/gvf1o#GVF1_0001)
|
405
582
|
def self.Set
|
@@ -412,6 +589,8 @@ class GVF1O
|
|
412
589
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0002')
|
413
590
|
end
|
414
591
|
|
592
|
+
# Representation of attribute tag/value pairs that are not covered by specific classes such as Effect or Variant.
|
593
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0003)
|
415
594
|
def self.Attribute
|
416
595
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0003')
|
417
596
|
end
|
@@ -422,12 +601,6 @@ class GVF1O
|
|
422
601
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0016')
|
423
602
|
end
|
424
603
|
|
425
|
-
# A class describing relationships between features and external databases.
|
426
|
-
# (http://www.biointerchange.org/gvf1o#GVF1_0028)
|
427
|
-
def self.DBXRef
|
428
|
-
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0028')
|
429
|
-
end
|
430
|
-
|
431
604
|
# Describing specific alterations of a feature.
|
432
605
|
# (http://www.biointerchange.org/gvf1o#GVF1_0033)
|
433
606
|
def self.Variant
|
@@ -476,6 +649,66 @@ class GVF1O
|
|
476
649
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0088')
|
477
650
|
end
|
478
651
|
|
652
|
+
# Details about the sequencing/microarray technology used to gather the data in a set.
|
653
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0097)
|
654
|
+
def self.TechnologyPlatform
|
655
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0097')
|
656
|
+
end
|
657
|
+
|
658
|
+
# 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.
|
659
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0098)
|
660
|
+
def self.DataSource
|
661
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0098')
|
662
|
+
end
|
663
|
+
|
664
|
+
# Information about the used scoring algorithm or method.
|
665
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0099)
|
666
|
+
def self.Method
|
667
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0099')
|
668
|
+
end
|
669
|
+
|
670
|
+
# Additional information about an individual's phenotype.
|
671
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0100)
|
672
|
+
def self.PhenotypeDescription
|
673
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0100')
|
674
|
+
end
|
675
|
+
|
676
|
+
# Type of reads obtained for a given technology platform.
|
677
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0109)
|
678
|
+
def self.ReadType
|
679
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0109')
|
680
|
+
end
|
681
|
+
|
682
|
+
# Determines the datatype of a variant sequence.
|
683
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0114)
|
684
|
+
def self.DataType
|
685
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0114')
|
686
|
+
end
|
687
|
+
|
688
|
+
# A landmark that establishes the coordinate system for features.
|
689
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0135)
|
690
|
+
def self.Landmark
|
691
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0135')
|
692
|
+
end
|
693
|
+
|
694
|
+
# For single individual sets, the Sex class' OWL-individuals can be used to specify the sex of the sequenced (real-life) individuals.
|
695
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0140)
|
696
|
+
def self.Sex
|
697
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0140')
|
698
|
+
end
|
699
|
+
|
700
|
+
# An enumerated class for determining the genomic source (cell type) of sequenced data.
|
701
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0141)
|
702
|
+
def self.GenomicSource
|
703
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0141')
|
704
|
+
end
|
705
|
+
|
706
|
+
# Representation of attribute tag/value pairs that are specific to particular structured attributes, but which are not covered by the GVF specification.
|
707
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0151)
|
708
|
+
def self.StructuredAttribute
|
709
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0151')
|
710
|
+
end
|
711
|
+
|
479
712
|
# Location on the positive (forward) strand.
|
480
713
|
# (http://www.biointerchange.org/gvf1o#GVF1_0017)
|
481
714
|
def self.Positive
|
@@ -518,10 +751,82 @@ class GVF1O
|
|
518
751
|
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0087')
|
519
752
|
end
|
520
753
|
|
754
|
+
# Denotes reads that are fragments.
|
755
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0110)
|
756
|
+
def self.Fragment
|
757
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0110')
|
758
|
+
end
|
759
|
+
|
760
|
+
# Denotes reads that are pairs.
|
761
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0111)
|
762
|
+
def self.Pair
|
763
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0111')
|
764
|
+
end
|
765
|
+
|
766
|
+
# Denotes a DNA sequence.
|
767
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0115)
|
768
|
+
def self.DNASequence
|
769
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0115')
|
770
|
+
end
|
771
|
+
|
772
|
+
# Denotes an RNA sequence.
|
773
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0116)
|
774
|
+
def self.RNASequence
|
775
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0116')
|
776
|
+
end
|
777
|
+
|
778
|
+
# Denotes a DNA microarray probe.
|
779
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0117)
|
780
|
+
def self.DNAMicroarray
|
781
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0117')
|
782
|
+
end
|
783
|
+
|
784
|
+
# Denotes an array-comparative genomic hybridization.
|
785
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0118)
|
786
|
+
def self.ArrayComparativeGenomicHybridization
|
787
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0118')
|
788
|
+
end
|
789
|
+
|
790
|
+
# Denotes that a Set contains features of a female.
|
791
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0142)
|
792
|
+
def self.Female
|
793
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0142')
|
794
|
+
end
|
795
|
+
|
796
|
+
# Denotes that a Set contains features of a male.
|
797
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0143)
|
798
|
+
def self.Male
|
799
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0143')
|
800
|
+
end
|
801
|
+
|
802
|
+
# Denotes that a set contains features of prenatal cells.
|
803
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0144)
|
804
|
+
def self.Prenatal
|
805
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0144')
|
806
|
+
end
|
807
|
+
|
808
|
+
# Denotes that a set contains features of germline cells.
|
809
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0145)
|
810
|
+
def self.Germline
|
811
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0145')
|
812
|
+
end
|
813
|
+
|
814
|
+
# Denotes that a set contains features of somatic cells.
|
815
|
+
# (http://www.biointerchange.org/gvf1o#GVF1_0146)
|
816
|
+
def self.Somatic
|
817
|
+
return RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0146')
|
818
|
+
end
|
819
|
+
|
521
820
|
# Determines whether the given URI is an object property.
|
522
821
|
#
|
523
822
|
# +uri+:: URI that is tested for being an object property
|
524
823
|
def self.is_object_property?(uri)
|
824
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004') then
|
825
|
+
return true
|
826
|
+
end
|
827
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006') then
|
828
|
+
return true
|
829
|
+
end
|
525
830
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0010') then
|
526
831
|
return true
|
527
832
|
end
|
@@ -588,6 +893,9 @@ class GVF1O
|
|
588
893
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0070') then
|
589
894
|
return true
|
590
895
|
end
|
896
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') then
|
897
|
+
return true
|
898
|
+
end
|
591
899
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0075') then
|
592
900
|
return true
|
593
901
|
end
|
@@ -612,6 +920,72 @@ class GVF1O
|
|
612
920
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0091') then
|
613
921
|
return true
|
614
922
|
end
|
923
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0096') then
|
924
|
+
return true
|
925
|
+
end
|
926
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0102') then
|
927
|
+
return true
|
928
|
+
end
|
929
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0103') then
|
930
|
+
return true
|
931
|
+
end
|
932
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0104') then
|
933
|
+
return true
|
934
|
+
end
|
935
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0112') then
|
936
|
+
return true
|
937
|
+
end
|
938
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0119') then
|
939
|
+
return true
|
940
|
+
end
|
941
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0120') then
|
942
|
+
return true
|
943
|
+
end
|
944
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0121') then
|
945
|
+
return true
|
946
|
+
end
|
947
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0122') then
|
948
|
+
return true
|
949
|
+
end
|
950
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0123') then
|
951
|
+
return true
|
952
|
+
end
|
953
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0124') then
|
954
|
+
return true
|
955
|
+
end
|
956
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0125') then
|
957
|
+
return true
|
958
|
+
end
|
959
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0126') then
|
960
|
+
return true
|
961
|
+
end
|
962
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0127') then
|
963
|
+
return true
|
964
|
+
end
|
965
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0128') then
|
966
|
+
return true
|
967
|
+
end
|
968
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0129') then
|
969
|
+
return true
|
970
|
+
end
|
971
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0130') then
|
972
|
+
return true
|
973
|
+
end
|
974
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0131') then
|
975
|
+
return true
|
976
|
+
end
|
977
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0147') then
|
978
|
+
return true
|
979
|
+
end
|
980
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0148') then
|
981
|
+
return true
|
982
|
+
end
|
983
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0150') then
|
984
|
+
return true
|
985
|
+
end
|
986
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0152') then
|
987
|
+
return true
|
988
|
+
end
|
615
989
|
return false
|
616
990
|
end
|
617
991
|
|
@@ -619,15 +993,9 @@ class GVF1O
|
|
619
993
|
#
|
620
994
|
# +uri+:: URI that is tested for being a datatype property
|
621
995
|
def self.is_datatype_property?(uri)
|
622
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0004') then
|
623
|
-
return true
|
624
|
-
end
|
625
996
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0005') then
|
626
997
|
return true
|
627
998
|
end
|
628
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0006') then
|
629
|
-
return true
|
630
|
-
end
|
631
999
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0007') then
|
632
1000
|
return true
|
633
1001
|
end
|
@@ -655,12 +1023,6 @@ class GVF1O
|
|
655
1023
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0027') then
|
656
1024
|
return true
|
657
1025
|
end
|
658
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0029') then
|
659
|
-
return true
|
660
|
-
end
|
661
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0030') then
|
662
|
-
return true
|
663
|
-
end
|
664
1026
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0031') then
|
665
1027
|
return true
|
666
1028
|
end
|
@@ -703,9 +1065,6 @@ class GVF1O
|
|
703
1065
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0061') then
|
704
1066
|
return true
|
705
1067
|
end
|
706
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0062') then
|
707
|
-
return true
|
708
|
-
end
|
709
1068
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0063') then
|
710
1069
|
return true
|
711
1070
|
end
|
@@ -718,9 +1077,6 @@ class GVF1O
|
|
718
1077
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0071') then
|
719
1078
|
return true
|
720
1079
|
end
|
721
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0072') then
|
722
|
-
return true
|
723
|
-
end
|
724
1080
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0073') then
|
725
1081
|
return true
|
726
1082
|
end
|
@@ -751,6 +1107,54 @@ class GVF1O
|
|
751
1107
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0095') then
|
752
1108
|
return true
|
753
1109
|
end
|
1110
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0101') then
|
1111
|
+
return true
|
1112
|
+
end
|
1113
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0105') then
|
1114
|
+
return true
|
1115
|
+
end
|
1116
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0106') then
|
1117
|
+
return true
|
1118
|
+
end
|
1119
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') then
|
1120
|
+
return true
|
1121
|
+
end
|
1122
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0108') then
|
1123
|
+
return true
|
1124
|
+
end
|
1125
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') then
|
1126
|
+
return true
|
1127
|
+
end
|
1128
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0132') then
|
1129
|
+
return true
|
1130
|
+
end
|
1131
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0133') then
|
1132
|
+
return true
|
1133
|
+
end
|
1134
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0134') then
|
1135
|
+
return true
|
1136
|
+
end
|
1137
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136') then
|
1138
|
+
return true
|
1139
|
+
end
|
1140
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0137') then
|
1141
|
+
return true
|
1142
|
+
end
|
1143
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0138') then
|
1144
|
+
return true
|
1145
|
+
end
|
1146
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0139') then
|
1147
|
+
return true
|
1148
|
+
end
|
1149
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0149') then
|
1150
|
+
return true
|
1151
|
+
end
|
1152
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0153') then
|
1153
|
+
return true
|
1154
|
+
end
|
1155
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0154') then
|
1156
|
+
return true
|
1157
|
+
end
|
754
1158
|
return false
|
755
1159
|
end
|
756
1160
|
|
@@ -770,9 +1174,6 @@ class GVF1O
|
|
770
1174
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0016') then
|
771
1175
|
return true
|
772
1176
|
end
|
773
|
-
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0028') then
|
774
|
-
return true
|
775
|
-
end
|
776
1177
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0033') then
|
777
1178
|
return true
|
778
1179
|
end
|
@@ -797,6 +1198,36 @@ class GVF1O
|
|
797
1198
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0088') then
|
798
1199
|
return true
|
799
1200
|
end
|
1201
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0097') then
|
1202
|
+
return true
|
1203
|
+
end
|
1204
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0098') then
|
1205
|
+
return true
|
1206
|
+
end
|
1207
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0099') then
|
1208
|
+
return true
|
1209
|
+
end
|
1210
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0100') then
|
1211
|
+
return true
|
1212
|
+
end
|
1213
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0109') then
|
1214
|
+
return true
|
1215
|
+
end
|
1216
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0114') then
|
1217
|
+
return true
|
1218
|
+
end
|
1219
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0135') then
|
1220
|
+
return true
|
1221
|
+
end
|
1222
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0140') then
|
1223
|
+
return true
|
1224
|
+
end
|
1225
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0141') then
|
1226
|
+
return true
|
1227
|
+
end
|
1228
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0151') then
|
1229
|
+
return true
|
1230
|
+
end
|
800
1231
|
return false
|
801
1232
|
end
|
802
1233
|
|
@@ -825,6 +1256,39 @@ class GVF1O
|
|
825
1256
|
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0087') then
|
826
1257
|
return true
|
827
1258
|
end
|
1259
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0110') then
|
1260
|
+
return true
|
1261
|
+
end
|
1262
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0111') then
|
1263
|
+
return true
|
1264
|
+
end
|
1265
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0115') then
|
1266
|
+
return true
|
1267
|
+
end
|
1268
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0116') then
|
1269
|
+
return true
|
1270
|
+
end
|
1271
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0117') then
|
1272
|
+
return true
|
1273
|
+
end
|
1274
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0118') then
|
1275
|
+
return true
|
1276
|
+
end
|
1277
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0142') then
|
1278
|
+
return true
|
1279
|
+
end
|
1280
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0143') then
|
1281
|
+
return true
|
1282
|
+
end
|
1283
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0144') then
|
1284
|
+
return true
|
1285
|
+
end
|
1286
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0145') then
|
1287
|
+
return true
|
1288
|
+
end
|
1289
|
+
if uri == RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0146') then
|
1290
|
+
return true
|
1291
|
+
end
|
828
1292
|
return false
|
829
1293
|
end
|
830
1294
|
|
@@ -851,7 +1315,7 @@ class GVF1O
|
|
851
1315
|
end
|
852
1316
|
|
853
1317
|
private
|
854
|
-
@@parent_properties = { 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_0044') => 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') , 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|
1318
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RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0095') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0092') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0101') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0059') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0105') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0106') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0113') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0108') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0132') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0133') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0134') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0107') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0137') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0138') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0139') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0136') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0149') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0063') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0154') => RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0153') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0088') => RDF::URI.new('http://www.w3.org/2002/07/owl#Thing') , RDF::URI.new('http://www.biointerchange.org/gvf1o#GVF1_0151') => RDF::URI.new('http://www.w3.org/2002/07/owl#Thing') }
|
855
1319
|
|
856
1320
|
end
|
857
1321
|
|