Skip to main content


class HS.FHIR.DTL.vR4.Model.Resource.MolecularSequence extends HS.FHIR.DTL.vR4.Model.Base.DomainResource

Information about a biological sequence.

Property Inventory


Inherited description: ELEMENTQUALIFIED controls the format of exported XML. The ELEMENTQUALIFIED specification should be based on the elementFormDefault attribute of the schema that defines the type. To maintain compatibility, ELEMENTQUALIFIED will default to 1 (true) for literal format export and will default to 0 (false) for encoded or encoded12 format export. These were the values always previously assumed for the elementFormDefault attribute.

NOTE: Direct use of XMLExport method does not support the ELEMENTQUALIFIED. The export must be done using %XML.Writer or SOAP support.

parameter XMLNAME = MolecularSequence;
Inherited description: This parameter provides the default XMLNAME for the class. If it is empty then the class name will be used to construct a default XML name. The default XMLNAME is used as the top level tag when exporting objects and the export context did not provide an XML container name.
parameter XMLSEQUENCE = 1;
Inherited description: If the XMLSEQUENCE = 1, then the order of the XML elements must match the order of the class properties. This allows us to deal with XML where the same field appears multiple times and is distinguished by the order.
parameter XMLTYPE = MolecularSequence;
Inherited description: This parameter provides the default XMLTYPE for the class. If it is empty then the class name will be used to construct a default XML type.

The default XMLTYPE is used when naming and referencing this type in a schema and the schema context did not provide an XML type name.


property coordinateSystem as %Integer (XMLNAME = "coordinateSystem", XMLPROJECTION = "ATTRIBUTE") [ Required ];

Base number of coordinate system (0 for 0-based numbering or coordinates, inclusive start, exclusive end, 1 for 1-based numbering, inclusive start, inclusive end)

Property methods: coordinateSystemDisplayToLogical(), coordinateSystemGet(), coordinateSystemIsValid(), coordinateSystemLogicalToDisplay(), coordinateSystemNormalize(), coordinateSystemSet(), coordinateSystemXSDToLogical()
property device as HS.FHIR.DTL.vR4.Model.Base.Reference (XMLNAME = "device", XMLPROJECTION = "ELEMENT");

The method for sequencing.


Property methods: deviceGet(), deviceGetSwizzled(), deviceIsValid(), deviceNewObject(), deviceSet()
property identifier as list of HS.FHIR.DTL.vR4.Model.Datatype.Identifier (XMLNAME = "identifier", XMLPROJECTION = "ELEMENT");

Unique ID for this particular sequence. This is a FHIR-defined id.

Property methods: identifierBuildValueArray(), identifierCollectionToDisplay(), identifierCollectionToOdbc(), identifierDisplayToCollection(), identifierGet(), identifierGetObject(), identifierGetObjectId(), identifierGetSwizzled(), identifierIsValid(), identifierOdbcToCollection(), identifierSet(), identifierSetObject(), identifierSetObjectId()
property observedSeq as %String (MAXLEN = 1000000, XMLNAME = "observedSeq", XMLPROJECTION = "ATTRIBUTE");

Sequence that was observed.

Property methods: observedSeqDisplayToLogical(), observedSeqGet(), observedSeqIsValid(), observedSeqLogicalToDisplay(), observedSeqLogicalToOdbc(), observedSeqNormalize(), observedSeqSet()
property patient as HS.FHIR.DTL.vR4.Model.Base.Reference (XMLNAME = "patient", XMLPROJECTION = "ELEMENT");

Who and/or what this is about.


Property methods: patientGet(), patientGetSwizzled(), patientIsValid(), patientNewObject(), patientSet()
property performer as HS.FHIR.DTL.vR4.Model.Base.Reference (XMLNAME = "performer", XMLPROJECTION = "ELEMENT");

Who should be responsible for test result.


Property methods: performerGet(), performerGetSwizzled(), performerIsValid(), performerNewObject(), performerSet()
property pointer as list of HS.FHIR.DTL.vR4.Model.Base.Reference (XMLNAME = "pointer", XMLPROJECTION = "ELEMENT");

Pointer to next atomic sequence.


Property methods: pointerBuildValueArray(), pointerCollectionToDisplay(), pointerCollectionToOdbc(), pointerDisplayToCollection(), pointerGet(), pointerGetObject(), pointerGetObjectId(), pointerGetSwizzled(), pointerIsValid(), pointerOdbcToCollection(), pointerSet(), pointerSetObject(), pointerSetObjectId()
property quality as list of HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.quality (XMLNAME = "quality", XMLPROJECTION = "ELEMENT");

An set of value as quality of sequence.

Property methods: qualityBuildValueArray(), qualityCollectionToDisplay(), qualityCollectionToOdbc(), qualityDisplayToCollection(), qualityGet(), qualityGetObject(), qualityGetObjectId(), qualityGetSwizzled(), qualityIsValid(), qualityOdbcToCollection(), qualitySet(), qualitySetObject(), qualitySetObjectId()
property quantity as HS.FHIR.DTL.vR4.Model.Datatype.Quantity (XMLNAME = "quantity", XMLPROJECTION = "ELEMENT");

The number of copies of the sequence of interest. (RNASeq)

Property methods: quantityGet(), quantityGetSwizzled(), quantityIsValid(), quantityNewObject(), quantitySet()
property readCoverage as %Integer (XMLNAME = "readCoverage", XMLPROJECTION = "ATTRIBUTE");

Average number of reads representing a given nucleotide in the reconstructed sequence.

Property methods: readCoverageDisplayToLogical(), readCoverageGet(), readCoverageIsValid(), readCoverageLogicalToDisplay(), readCoverageNormalize(), readCoverageSet(), readCoverageXSDToLogical()
property referenceSeq as HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.referenceSeq (XMLNAME = "referenceSeq", XMLPROJECTION = "ELEMENT");

A sequence used as reference.

Property methods: referenceSeqGet(), referenceSeqGetSwizzled(), referenceSeqIsValid(), referenceSeqNewObject(), referenceSeqSet()
property repository as list of HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.repository (XMLNAME = "repository", XMLPROJECTION = "ELEMENT");

External repository which contains detailed report related with observedSeq in this resource.

Property methods: repositoryBuildValueArray(), repositoryCollectionToDisplay(), repositoryCollectionToOdbc(), repositoryDisplayToCollection(), repositoryGet(), repositoryGetObject(), repositoryGetObjectId(), repositoryGetSwizzled(), repositoryIsValid(), repositoryOdbcToCollection(), repositorySet(), repositorySetObject(), repositorySetObjectId()
property specimen as HS.FHIR.DTL.vR4.Model.Base.Reference (XMLNAME = "specimen", XMLPROJECTION = "ELEMENT");

Specimen used for sequencing.


Property methods: specimenGet(), specimenGetSwizzled(), specimenIsValid(), specimenNewObject(), specimenSet()
property structureVariant as list of HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.structureVariant (XMLNAME = "structureVariant", XMLPROJECTION = "ELEMENT");

Structural variant.

Property methods: structureVariantBuildValueArray(), structureVariantCollectionToDisplay(), structureVariantCollectionToOdbc(), structureVariantDisplayToCollection(), structureVariantGet(), structureVariantGetObject(), structureVariantGetObjectId(), structureVariantGetSwizzled(), structureVariantIsValid(), structureVariantOdbcToCollection(), structureVariantSet(), structureVariantSetObject(), structureVariantSetObjectId()
property type as %String (MAXLEN = 1000000, XMLNAME = "type", XMLPROJECTION = "ATTRIBUTE");

aa | dna | rna

sequence-type|4.0.1 is the REQUIRED FHIR4 ValueSet for codes; you may NOT extend sequence-type|4.0.1 and you may NOT use codes from other ValueSets.

Property methods: typeDisplayToLogical(), typeGet(), typeIsValid(), typeLogicalToDisplay(), typeLogicalToOdbc(), typeNormalize(), typeSet()
property variant as list of HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.variant (XMLNAME = "variant", XMLPROJECTION = "ELEMENT");

Variant in sequence.

Property methods: variantBuildValueArray(), variantCollectionToDisplay(), variantCollectionToOdbc(), variantDisplayToCollection(), variantGet(), variantGetObject(), variantGetObjectId(), variantGetSwizzled(), variantIsValid(), variantOdbcToCollection(), variantSet(), variantSetObject(), variantSetObjectId()

Inherited Members

Inherited Properties

Inherited Methods

FeedbackOpens in a new tab