MolecularSequenceQuality class
MolecularSequenceQuality Raw data describing a biological sequence.
- Annotations
-
- @freezed
Constructors
-
MolecularSequenceQuality({@JsonKey(name: 'id') FhirId? fhirId, @JsonKey(name: 'extension') List<
FhirExtension> ? extension_, List<FhirExtension> ? modifierExtension, FhirCode? type, @JsonKey(name: '_type') Element? typeElement, CodeableConcept? standardSequence, FhirInteger? start, @JsonKey(name: '_start') Element? startElement, FhirInteger? end, @JsonKey(name: '_end') Element? endElement, Quantity? score, CodeableConcept? method, FhirDecimal? truthTP, @JsonKey(name: '_truthTP') Element? truthTPElement, FhirDecimal? queryTP, @JsonKey(name: '_queryTP') Element? queryTPElement, FhirDecimal? truthFN, @JsonKey(name: '_truthFN') Element? truthFNElement, FhirDecimal? queryFP, @JsonKey(name: '_queryFP') Element? queryFPElement, FhirDecimal? gtFP, @JsonKey(name: '_gtFP') Element? gtFPElement, FhirDecimal? precision, @JsonKey(name: '_precision') Element? precisionElement, FhirDecimal? recall, @JsonKey(name: '_recall') Element? recallElement, FhirDecimal? fScore, @JsonKey(name: '_fScore') Element? fScoreElement, MolecularSequenceRoc? roc}) -
MolecularSequenceQuality Raw data describing a biological sequence.
constfactory
-
MolecularSequenceQuality.fromJson(Map<
String, dynamic> json) -
Factory constructor, accepts Map<String, dynamic> as an argument
factory
- MolecularSequenceQuality.fromJsonString(String source)
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Acts like a constructor, returns a MolecularSequenceQuality, accepts a
String as an argument, mostly because I got tired of typing it out
factory
- MolecularSequenceQuality.fromYaml(dynamic yaml)
-
Factory constructor that accepts a String in YAML format as an argument
factory
Properties
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copyWith
→ $MolecularSequenceQualityCopyWith<
MolecularSequenceQuality> -
no setterinherited
- end → FhirInteger?
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end
End position of the sequence. If the coordinate system is 0-based then end is exclusive and does not include the last position. If the coordinate system is 1-base, then end is inclusive and includes the last position.no setterinherited - endElement → Element?
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endElement
Extensions for endno setterinherited -
extension_
→ List<
FhirExtension> ? -
extension_
May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.no setterinherited - fhirId → FhirId?
-
id Unique id for the element within a resource (for internal
references). This may be any string value that does not contain spaces.
no setterinherited
- fScore → FhirDecimal?
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fScore
Harmonic mean of Recall and Precision, computed as: 2 * precision * recall / (precision + recall).no setterinherited - fScoreElement → Element?
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fScoreElement
Extensions for fScoreno setterinherited - gtFP → FhirDecimal?
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gtFP
The number of false positives where the non-REF alleles in the Truth and Query Call Sets match (i.e. cases where the truth is 1/1 and the query is 0/1 or similar).no setterinherited - gtFPElement → Element?
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gtFPElement
Extensions for gtFPno setterinherited - hashCode → int
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The hash code for this object.
no setterinherited
- method → CodeableConcept?
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method
Which method is used to get sequence quality.no setterinherited -
modifierExtension
→ List<
FhirExtension> ? -
modifierExtension
May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions. Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).no setterinherited - precision → FhirDecimal?
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precision
QUERY.TP / (QUERY.TP + QUERY.FP).no setterinherited - precisionElement → Element?
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precisionElement
Extensions for precisionno setterinherited - queryFP → FhirDecimal?
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queryFP
False positives, i.e. the number of sites in the Query Call Set for which there is no path through the Truth Call Set that is consistent with this site. Sites with correct variant but incorrect genotype are counted here.no setterinherited - queryFPElement → Element?
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queryFPElement
Extensions for queryFPno setterinherited - queryTP → FhirDecimal?
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queryTP
True positives, from the perspective of the query data, i.e. the number of sites in the Query Call Set for which there are paths through the Truth Call Set that are consistent with all of the alleles at this site, and for which there is an accurate genotype call for the event.no setterinherited - queryTPElement → Element?
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queryTPElement
Extensions for queryTPno setterinherited - recall → FhirDecimal?
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recall
TRUTH.TP / (TRUTH.TP + TRUTH.FN).no setterinherited - recallElement → Element?
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recallElement
Extensions for recallno setterinherited - roc → MolecularSequenceRoc?
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roc
Receiver Operator Characteristic (ROC) Curve to give sensitivity/specificity tradeoff.no setterinherited - runtimeType → Type
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A representation of the runtime type of the object.
no setterinherited
- score → Quantity?
-
score
The score of an experimentally derived feature such as a p-value (SO:0001685).no setterinherited - standardSequence → CodeableConcept?
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standardSequence
Gold standard sequence used for comparing against.no setterinherited - start → FhirInteger?
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start
Start position of the sequence. If the coordinate system is either 0-based or 1-based, then start position is inclusive.no setterinherited - startElement → Element?
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startElement
Extensions for startno setterinherited - truthFN → FhirDecimal?
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truthFN
False negatives, i.e. the number of sites in the Truth Call Set for which there is no path through the Query Call Set that is consistent with all of the alleles at this site, or sites for which there is an inaccurate genotype call for the event. Sites with correct variant but incorrect genotype are counted here.no setterinherited - truthFNElement → Element?
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truthFNElement
Extensions for truthFNno setterinherited - truthTP → FhirDecimal?
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truthTP
True positives, from the perspective of the truth data, i.e. the number of sites in the Truth Call Set for which there are paths through the Query Call Set that are consistent with all of the alleles at this site, and for which there is an accurate genotype call for the event.no setterinherited - truthTPElement → Element?
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truthTPElement
Extensions for truthTPno setterinherited - type → FhirCode?
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type
INDEL / SNP / Undefined variant.no setterinherited - typeElement → Element?
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typeElement
Extensions for typeno setterinherited
Methods
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noSuchMethod(
Invocation invocation) → dynamic -
Invoked when a nonexistent method or property is accessed.
inherited
-
toJson(
) → Map< String, dynamic> -
inherited
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toJsonString(
) → String - Another convenience method because more and more I'm transmitting FHIR data as a String and not a Map
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toString(
) → String -
A string representation of this object.
inherited
-
toYaml(
) → String - Produces a Yaml formatted String version of the object
Operators
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operator ==(
Object other) → bool -
The equality operator.
inherited