HTML documentation pages for every vcfr: term referenced in this repository (ontology, SHACL, examples, and docs).
| Term | Type | Sources | Summary |
|---|---|---|---|
vcfr:alt |
Datatype Property | ontology, repo | ALT allele string; for multiple ALT alleles you may repeat this property or use rdf:List externally. |
vcfr:AltDefinition |
Class | ontology, repo | No ontology comment available. |
vcfr:ALTHeaderLine |
Class | ontology, repo | Represents ##ALT=<ID=...,Description=...> used for symbolic alternate alleles. |
vcfr:altId |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:asSequenceAlteration |
Object Property | ontology, repo | Links a VCF record/call to a sequence alteration representation (e.g., SB/gvar SequenceAlteration: so:0001059). |
vcfr:CharacterType |
Class | ontology, repo | No ontology comment available. |
vcfr:chrom |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:chromosome |
Object Property | ontology, repo | Reference sequence for CHROM, preferably resolvable (e.g., INSDC/RefSeq/Ensembl). Can align to FALDO reference. |
vcfr:contigAssembly |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:contigCount |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:ContigHeaderLine |
Class | ontology, repo | Represents ##contig=<ID=...,length=...,assembly=...,...> entries. |
vcfr:contigId |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:contigLength |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:contigMd5 |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:declaredBy |
Object Property | ontology, repo | Links an INFO/FORMAT/FILTER/ALT value/usage to its header definition line. |
vcfr:FieldDefinition |
Class | ontology, repo | Common superclass for INFO/FORMAT/FILTER/ALT header definitions. |
vcfr:fieldDescription |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:fieldId |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:fieldNumber |
Datatype Property | ontology, repo | The VCF Number value as string (e.g., 0, 1, A, R, G, .). |
vcfr:fieldType |
Object Property | ontology, repo | No ontology comment available. |
vcfr:fieldValue |
Datatype Property | ontology, repo | Literal string value; for typed values prefer vcfr:fieldValueInteger/Decimal/Boolean when possible. For source token '.', use literal '.'^^vcfr:Null. |
vcfr:fieldValueBoolean |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:fieldValueDecimal |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:fieldValueInteger |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:fileDate |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:FileDateHeaderLine |
Class | ontology, repo | No ontology comment available. |
vcfr:fileFormat |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:FileFormatHeaderLine |
Class | ontology, repo | No ontology comment available. |
vcfr:filter |
Datatype Property | ontology, repo | FILTER column value (e.g., PASS or semicolon-separated list). For source token '.', use literal '.'^^vcfr:Null. |
vcfr:FilterDefinition |
Class | ontology, repo | No ontology comment available. |
vcfr:FILTERHeaderLine |
Class | ontology, repo | Represents ##FILTER=<ID=...,Description=...>. |
vcfr:filterId |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:FlagType |
Class | ontology, repo | No ontology comment available. |
vcfr:FloatType |
Class | ontology, repo | No ontology comment available. |
vcfr:FormatFieldDefinition |
Class | ontology, repo | No ontology comment available. |
vcfr:FormatFieldDefinitionShape |
Referenced Term | repo | No ontology comment available. |
vcfr:FormatFieldValue |
Class | ontology, repo | A structured key/value for one FORMAT attribute within a sample call. |
vcfr:FormatFieldValueShape |
Referenced Term | repo | No ontology comment available. |
vcfr:FORMATHeaderLine |
Class | ontology, repo | Represents ##FORMAT=<ID=...,Number=...,Type=...,Description=...>. |
vcfr:formatRaw |
Datatype Property | ontology, repo | Raw FORMAT string as in VCF (optional). Use structured vcfr:FormatFieldValue in SampleCall. |
vcfr:hasCall |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasFormatValue |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasHeader |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasHeaderLine |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasInfoValue |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasRecord |
Object Property | ontology, repo | No ontology comment available. |
vcfr:hasSampleCall |
Object Property | ontology, repo | No ontology comment available. |
vcfr:headerKey |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:HeaderLine |
Class | ontology, repo | A structured representation of one VCF header line (e.g., ##fileformat, ##INFO=<...>). |
vcfr:headerValue |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:InfoFieldDefinition |
Class | ontology, repo | No ontology comment available. |
vcfr:InfoFieldDefinitionShape |
Referenced Term | repo | No ontology comment available. |
vcfr:InfoFieldValue |
Class | ontology, repo | A structured key/value for one INFO attribute within a record/call. |
vcfr:InfoFieldValueShape |
Referenced Term | repo | No ontology comment available. |
vcfr:INFOHeaderLine |
Class | ontology, repo | Represents ##INFO=<ID=...,Number=...,Type=...,Description=...>. |
vcfr:infoRaw |
Datatype Property | ontology, repo | Raw INFO string as in VCF (optional). Use structured vcfr:InfoFieldValue for machine-use. For source token '.', use literal '.'^^vcfr:Null. |
vcfr:IntegerType |
Class | ontology, repo | No ontology comment available. |
vcfr:iriTemplate |
Annotation Property | ontology, repo | Recommended IRI minting template (RFC6570-style placeholders) for resources in this model. |
vcfr:missingValuePolicy |
Annotation Property | ontology, repo | Defines how VCF missing token '.' should be represented in RDF. |
vcfr:Null |
Referenced Term | repo | No ontology comment available. |
vcfr:pos |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:qual |
Datatype Property | ontology, repo | QUAL column value. For source token '.', use literal '.'^^vcfr:Null. |
vcfr:recommendedSequenceAlterationClass |
Annotation Property | ontology, repo | No ontology comment available. |
vcfr:recordId |
Datatype Property | ontology, repo | VCF ID column (e.g., rsID). For source token '.', use literal '.'^^vcfr:Null. |
vcfr:ref |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:referenceGenome |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:ReferenceHeaderLine |
Class | ontology, repo | No ontology comment available. |
vcfr:SampleCall |
Class | ontology, repo | Per-sample values for a variant call (e.g., GT, DP, AD), as declared by FORMAT header lines. |
vcfr:SampleCallShape |
Referenced Term | repo | No ontology comment available. |
vcfr:sampleId |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:SourceHeaderLine |
Class | ontology, repo | No ontology comment available. |
vcfr:sourceSoftware |
Datatype Property | ontology, repo | No ontology comment available. |
vcfr:StringType |
Class | ontology, repo | No ontology comment available. |
vcfr:VariantCall |
Class | ontology, repo | Call-level representation for a record: QUAL/FILTER/INFO, plus FORMAT and per-sample fields. |
vcfr:VariantCallShape |
Referenced Term | repo | No ontology comment available. |
vcfr:VCFFile |
Class | ontology, repo | A VCF file artifact (as a dataset distribution) that contains a header and a set of VCF records. |
vcfr:VCFFileShape |
SHACL NodeShape | shacl, repo | No ontology comment available. |
vcfr:VCFHeader |
Class | ontology, repo | Container for the structured header lines of a VCF file. |
vcfr:VCFHeaderShape |
Referenced Term | repo | No ontology comment available. |
vcfr:VCFNumberArity |
Class | ontology, repo | Represents INFO/FORMAT Number values (e.g., 0, 1, A, R, G, .). |
vcfr:VCFRecord |
Class | ontology, repo | A row in a VCF (CHROM, POS, ID, REF, ALT, QUAL, FILTER, INFO, FORMAT, samples...). This is a VCF-centric view; link to a sequence alteration representation via vcfr:asSequenceAlteration. |
vcfr:VCFRecordShape |
Referenced Term | repo | No ontology comment available. |
vcfr:VCFValueType |
Class | ontology, repo | Enumerates VCF Type values used in INFO/FORMAT definitions: Integer, Float, Flag, Character, String. |