Skip to main content

HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.quality

class HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.quality extends HS.FHIR.DTL.vR4.Model.Base.BackboneElement

An set of value as quality of sequence.

Property Inventory

Parameters

parameter ELEMENTQUALIFIED = 1;
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.quality;
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 XMLPROJECTION = ELEMENT;
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.quality;
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.

Properties

property end as %Integer (XMLNAME = "end", XMLPROJECTION = "ATTRIBUTE");
integer

End position of the sequence.

Property methods: endDisplayToLogical(), endGet(), endIsValid(), endLogicalToDisplay(), endNormalize(), endSet(), endXSDToLogical()
property fScore as %Decimal (XMLNAME = "fScore", XMLPROJECTION = "ATTRIBUTE");
decimal

F-score.

Property methods: fScoreDisplayToLogical(), fScoreGet(), fScoreIsValid(), fScoreLogicalToDisplay(), fScoreNormalize(), fScoreSet(), fScoreXSDToLogical()
property gtFP as %Decimal (XMLNAME = "gtFP", XMLPROJECTION = "ATTRIBUTE");
decimal

False positives where the non-REF alleles in the Truth and Query Call Sets match.

Property methods: gtFPDisplayToLogical(), gtFPGet(), gtFPIsValid(), gtFPLogicalToDisplay(), gtFPNormalize(), gtFPSet(), gtFPXSDToLogical()
property method as HS.FHIR.DTL.vR4.Model.Datatype.CodeableConcept (XMLNAME = "method", XMLPROJECTION = "ELEMENT");
CodeableConcept

Method to get quality.

any FHIR4 code may be used; sequence-quality-method shows EXAMPLE codes, but you may use codes from any ValueSet.

Property methods: methodGet(), methodGetSwizzled(), methodIsValid(), methodNewObject(), methodSet()
property precision as %Decimal (XMLNAME = "precision", XMLPROJECTION = "ATTRIBUTE");
decimal

Precision of comparison.

Property methods: precisionDisplayToLogical(), precisionGet(), precisionIsValid(), precisionLogicalToDisplay(), precisionNormalize(), precisionSet(), precisionXSDToLogical()
property queryFP as %Decimal (XMLNAME = "queryFP", XMLPROJECTION = "ATTRIBUTE");
decimal

False positives.

Property methods: queryFPDisplayToLogical(), queryFPGet(), queryFPIsValid(), queryFPLogicalToDisplay(), queryFPNormalize(), queryFPSet(), queryFPXSDToLogical()
property queryTP as %Decimal (XMLNAME = "queryTP", XMLPROJECTION = "ATTRIBUTE");
decimal

True positives from the perspective of the query data.

Property methods: queryTPDisplayToLogical(), queryTPGet(), queryTPIsValid(), queryTPLogicalToDisplay(), queryTPNormalize(), queryTPSet(), queryTPXSDToLogical()
property recall as %Decimal (XMLNAME = "recall", XMLPROJECTION = "ATTRIBUTE");
decimal

Recall of comparison.

Property methods: recallDisplayToLogical(), recallGet(), recallIsValid(), recallLogicalToDisplay(), recallNormalize(), recallSet(), recallXSDToLogical()
property roc as HS.FHIR.DTL.vR4.Model.Element.MolecularSequence.quality.roc (XMLNAME = "roc", XMLPROJECTION = "ELEMENT");
BackboneElement

Receiver Operator Characteristic (ROC) Curve.

Property methods: rocGet(), rocGetSwizzled(), rocIsValid(), rocNewObject(), rocSet()
property score as HS.FHIR.DTL.vR4.Model.Datatype.Quantity (XMLNAME = "score", XMLPROJECTION = "ELEMENT");
Quantity

Quality score for the comparison.

Property methods: scoreGet(), scoreGetSwizzled(), scoreIsValid(), scoreNewObject(), scoreSet()
property standardSequence as HS.FHIR.DTL.vR4.Model.Datatype.CodeableConcept (XMLNAME = "standardSequence", XMLPROJECTION = "ELEMENT");
CodeableConcept

Standard sequence for comparison.

any FHIR4 code may be used; sequence-quality-standardSequence shows EXAMPLE codes, but you may use codes from any ValueSet.

Property methods: standardSequenceGet(), standardSequenceGetSwizzled(), standardSequenceIsValid(), standardSequenceNewObject(), standardSequenceSet()
property start as %Integer (XMLNAME = "start", XMLPROJECTION = "ATTRIBUTE");
integer

Start position of the sequence.

Property methods: startDisplayToLogical(), startGet(), startIsValid(), startLogicalToDisplay(), startNormalize(), startSet(), startXSDToLogical()
property truthFN as %Decimal (XMLNAME = "truthFN", XMLPROJECTION = "ATTRIBUTE");
decimal

False negatives.

Property methods: truthFNDisplayToLogical(), truthFNGet(), truthFNIsValid(), truthFNLogicalToDisplay(), truthFNNormalize(), truthFNSet(), truthFNXSDToLogical()
property truthTP as %Decimal (XMLNAME = "truthTP", XMLPROJECTION = "ATTRIBUTE");
decimal

True positives from the perspective of the truth data.

Property methods: truthTPDisplayToLogical(), truthTPGet(), truthTPIsValid(), truthTPLogicalToDisplay(), truthTPNormalize(), truthTPSet(), truthTPXSDToLogical()
property type as %String (MAXLEN = 1000000, XMLNAME = "type", XMLPROJECTION = "ATTRIBUTE") [ Required ];
code

indel | snp | unknown

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

Property methods: typeDisplayToLogical(), typeGet(), typeIsValid(), typeLogicalToDisplay(), typeLogicalToOdbc(), typeNormalize(), typeSet()

Inherited Members

Inherited Properties

Inherited Methods

FeedbackOpens in a new tab