Skip to content

RdfCrate

bioschemas

`rdfcrate.vocabs.bioschemas`

`BioChemEntity`

Bases: Thing

`BioSample`

Bases: BioChemEntity

`ChemicalSubstance`

Bases: BioChemEntity

`ComputationalWorkflow`

Bases: SoftwareSourceCode

`FormalParameter`

Bases: Intangible

`Gene`

Bases: BioChemEntity

`MolecularEntity`

Bases: BioChemEntity

`Protein`

Bases: BioChemEntity

`RdfProperty` `dataclass`

Bases: PropertyProtocol, Generic[T]

Represents the double of (predicate, object), with the subject being the class this is attached to.

This is the normal way properties will be defined As a user, you will typically use this class by instantiating subclasses from the vocabs module and attaching them to entities. If you want to define custom vocabulary, you can first subclass this and then create instances of that subclass.

`adhoc(term: RdfTerm, object: T) -> RdfProperty` `staticmethod`

Makes an ad-hoc property class from a term.

If you want to use the property multiple times, you should define a subclass instead.

`reverse(subject: RdfType) -> ReverseProperty` `classmethod`

Utility for when you want to make the current entity the object of a property, rather than the subject.

`with_term_label(label: str) -> type[RdfProperty[T]]` `classmethod`

Creates a new instance of this property with the given label. This is useful in cases where the term label is already defined by another vocabulary

`RdfTerm`

Wrapper for a term with a label and URI. This is needed because RO-Crate bans the use of full URIs in JSON-LD.

`Taxon`

Bases: Thing

`TaxonName`

Bases: CreativeWork

`additionalProperty` `dataclass`

Bases: RdfProperty[PropertyValue]

`alternateScientificName` `dataclass`

Bases: RdfProperty[Text | TaxonName | URL]

`alternativeOf` `dataclass`

Bases: RdfProperty[Gene]

`associatedDisease` `dataclass`

Bases: RdfProperty[MedicalCondition | PropertyValue | URL]

`bioChemInteraction` `dataclass`

Bases: RdfProperty[BioChemEntity]

`bioChemSimilarity` `dataclass`

Bases: RdfProperty[BioChemEntity]

`biologicalRole` `dataclass`

Bases: RdfProperty[DefinedTerm]

`chemicalComposition` `dataclass`

Bases: RdfProperty[Text]

`chemicalRole` `dataclass`

Bases: RdfProperty[DefinedTerm]

`childTaxon` `dataclass`

Bases: RdfProperty[Taxon | URL | Text]

`collector` `dataclass`

Bases: RdfProperty[Person | Organization]

`custodian` `dataclass`

Bases: RdfProperty[Person | Organization]

`dateCreated` `dataclass`

Bases: RdfProperty[Date]

`defaultValue` `dataclass`

Bases: RdfProperty[Text | Thing]

`documentation` `dataclass`

Bases: RdfProperty[URL | CreativeWork]

`encodesBioChemEntity` `dataclass`

Bases: RdfProperty[BioChemEntity]

`encodingFormat` `dataclass`

Bases: RdfProperty[URL | Text]

`expressedIn` `dataclass`

Bases: RdfProperty[AnatomicalStructure | DefinedTerm | BioChemEntity | AnatomicalSystem]

`funding` `dataclass`

Bases: RdfProperty[Grant]

`gender` `dataclass`

Bases: RdfProperty[Text | GenderType]

`hasBioChemEntityPart` `dataclass`

Bases: RdfProperty[BioChemEntity]

`hasBioPolymerSequence` `dataclass`

Bases: RdfProperty[Text]

`hasMolecularFunction` `dataclass`

Bases: RdfProperty[URL | DefinedTerm | PropertyValue]

`hasRepresentation` `dataclass`

Bases: RdfProperty[BioChemEntity]

`hasStatus` `dataclass`

Bases: RdfProperty[Text]

`inChI` `dataclass`

Bases: RdfProperty[Text]

`inChIKey` `dataclass`

Bases: RdfProperty[Text]

`input` `dataclass`

Bases: RdfProperty[FormalParameter]

`isControl` `dataclass`

Bases: RdfProperty[Boolean]

`isEncodedByBioChemEntity` `dataclass`

Bases: RdfProperty[Gene]

`isInvolvedInBiologicalProcess` `dataclass`

Bases: RdfProperty[PropertyValue | DefinedTerm | URL]

`isLocatedInSubcellularLocation` `dataclass`

Bases: RdfProperty[DefinedTerm | PropertyValue | URL]

`isPartOfBioChemEntity` `dataclass`

Bases: RdfProperty[BioChemEntity]

`itemLocation` `dataclass`

Bases: RdfProperty[Text | Place | PostalAddress]

`iupacName` `dataclass`

Bases: RdfProperty[Text]

`locationCreated` `dataclass`

Bases: RdfProperty[Place]

`molecularFormula` `dataclass`

Bases: RdfProperty[Text]

`molecularWeight` `dataclass`

Bases: RdfProperty[QuantitativeValue | Text]

`monoisotopicMolecularWeight` `dataclass`

Bases: RdfProperty[Text | QuantitativeValue]

`output` `dataclass`

Bases: RdfProperty[FormalParameter]

`parentTaxon` `dataclass`

Bases: RdfProperty[Taxon | URL | Text]

`potentialUse` `dataclass`

Bases: RdfProperty[DefinedTerm]

`samplingAge` `dataclass`

Bases: RdfProperty[Integer]

`scientificName` `dataclass`

Bases: RdfProperty[TaxonName | URL | Text]

`smiles` `dataclass`

Bases: RdfProperty[Text]

`softwareRequirements` `dataclass`

Bases: RdfProperty[URL | Text]

`taxonRank` `dataclass`

Bases: RdfProperty[PropertyValue | URL | Text]

`taxonomicRange` `dataclass`

Bases: RdfProperty[DefinedTerm | PropertyValue | URL | Taxon]

`valueRequired` `dataclass`

Bases: RdfProperty[Boolean]