FHIR Cross-Version Extensions package for FHIR R5 from FHIR R4B
0.0.1-snapshot-2 - informative
FHIR Cross-Version Extensions package for FHIR R5 from FHIR R4B
0.0.1-snapshot-2 - informative
FHIR Cross-Version Extensions package for FHIR R5 from FHIR R4B - Version 0.0.1-snapshot-2. See the Directory of published versions
| Official URL: http://hl7.org/fhir/4.3/StructureDefinition/extension-MolecularSequence.quality | Version: 0.0.1-snapshot-2 | |||
| Standards status: Informative | Maturity Level: 0 | Computable Name: Ext_R4B_MolecularSequence_quality | ||
| This cross-version extension represents MolecularSequence.quality from http://hl7.org/fhir/StructureDefinition/MolecularSequence | 4.3.0 for use in FHIR R5. |
Context of Use
This extension may be used on the following element(s):
Usage info
Usages:
You can also check for usages in the FHIR IG Statistics
Description of Profiles, Differentials, Snapshots, and how the XML and JSON presentations work.
This structure is derived from Extension
Summary
Simple Extension with the type base64Binary, boolean, canonical, code, date, dateTime, decimal, id, instant, integer, integer64, markdown, oid, positiveInt, string, time, unsignedInt, uri, url, uuid, Address, Age, Annotation, Attachment, CodeableConcept, CodeableReference, Coding, ContactPoint, Count, Distance, Duration, HumanName, Identifier, Money, Period, Quantity, Range, Ratio, RatioRange, Reference, SampledData, Signature, Timing, ContactDetail, DataRequirement, Expression, ParameterDefinition, RelatedArtifact, TriggerDefinition, UsageContext, Availability, ExtendedContactDetail, Dosage, Meta: This cross-version extension represents MolecularSequence.quality from http://hl7.org/fhir/StructureDefinition/MolecularSequence|4.3.0 for use in FHIR R5.
Maturity: 0
This structure is derived from Extension
| Name | Flags | Card. | Type | Description & Constraints Filter:   |
|---|---|---|---|---|
  Extension |
0..* | Extension(5.0.0) | An set of value as quality of sequence | |
  Slices for extension |
1..* | Extension | Extension Slice: Unordered, Closed by value:url | |
   extension:type |
1..1 | Extension | indel | snp | unknown | |
  url |
1..1 | uri | "type" | |
  value[x] |
0..1 | code | indel | snp | unknown Binding: R4B_quality_type_for_R5 (0.0.1-snapshot-2) (required): Type for quality | |
| extension:standardSequence |
0..1 | Extension | Standard sequence for comparison | |
| url |
1..1 | uri | "standardSequence" | |
 value[x] |
0..1 | CodeableConcept | Standard sequence for comparison Binding: R4B_sequence_quality_standardSequence_for_R5 (0.0.1-snapshot-2) (example): Reference identifier for standard sequence | |
| extension:start |
0..1 | Extension | Start position of the sequence | |
| url |
1..1 | uri | "start" | |
| value[x] |
0..1 | integer | Start position of the sequence | |
| extension:end |
0..1 | Extension | End position of the sequence | |
| url |
1..1 | uri | "end" | |
| value[x] |
0..1 | integer | End position of the sequence | |
| extension:score |
0..1 | Extension | Quality score for the comparison | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | Quantity | Quality score for the comparison | |
| extension:method |
0..1 | Extension | Method to get quality | |
| url |
1..1 | uri | "method" | |
| value[x] |
0..1 | CodeableConcept | Method to get quality Binding: R4B_sequence_quality_method_for_R5 (0.0.1-snapshot-2) (example): How to get the numerical score | |
| extension:truthTP |
0..1 | Extension | True positives from the perspective of the truth data | |
| url |
1..1 | uri | "truthTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the truth data | |
| extension:queryTP |
0..1 | Extension | True positives from the perspective of the query data | |
| url |
1..1 | uri | "queryTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the query data | |
| extension:truthFN |
0..1 | Extension | False negatives | |
| url |
1..1 | uri | "truthFN" | |
| value[x] |
0..1 | decimal | False negatives | |
| extension:queryFP |
0..1 | Extension | False positives | |
| url |
1..1 | uri | "queryFP" | |
| value[x] |
0..1 | decimal | False positives | |
| extension:gtFP |
0..1 | Extension | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| url |
1..1 | uri | "gtFP" | |
| value[x] |
0..1 | decimal | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| extension:precision |
0..1 | Extension | Precision of comparison | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of comparison | |
| extension:recall |
0..1 | Extension | Recall of comparison | |
| url |
1..1 | uri | "recall" | |
| value[x] |
0..1 | decimal | Recall of comparison | |
| extension:fScore |
0..1 | Extension | F-score | |
| url |
1..1 | uri | "fScore" | |
| value[x] |
0..1 | decimal | F-score | |
 extension:roc |
0..1 | Extension | Receiver Operator Characteristic (ROC) Curve | |
  Slices for extension |
0..* | Extension | Extension Slice: Unordered, Closed by value:url | |
 extension:score |
0..* | Extension | Genotype quality score | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | integer | Genotype quality score | |
| extension:numTP |
0..* | Extension | Roc score true positive numbers | |
| url |
1..1 | uri | "numTP" | |
| value[x] |
0..1 | integer | Roc score true positive numbers | |
| extension:numFP |
0..* | Extension | Roc score false positive numbers | |
| url |
1..1 | uri | "numFP" | |
| value[x] |
0..1 | integer | Roc score false positive numbers | |
| extension:numFN |
0..* | Extension | Roc score false negative numbers | |
| url |
1..1 | uri | "numFN" | |
| value[x] |
0..1 | integer | Roc score false negative numbers | |
| extension:precision |
0..* | Extension | Precision of the GQ score | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of the GQ score | |
| extension:sensitivity |
0..* | Extension | Sensitivity of the GQ score | |
| url |
1..1 | uri | "sensitivity" | |
| value[x] |
0..1 | decimal | Sensitivity of the GQ score | |
| extension:fMeasure |
0..* | Extension | FScore of the GQ score | |
| url |
1..1 | uri | "fMeasure" | |
| value[x] |
0..1 | decimal | FScore of the GQ score | |
| url |
1..1 | uri | "roc" | |
 url |
1..1 | uri | "http://hl7.org/fhir/4.3/StructureDefinition/extension-MolecularSequence.quality" | |
| Documentation for this format | ||||
| Name | Flags | Card. | Type | Description & Constraints Filter: |
|---|---|---|---|---|
| Extension |
0..* | Extension(5.0.0) | An set of value as quality of sequence Constraints: ext-1 | |
 id |
0..1 | id | Unique id for inter-element referencing | |
| Slices for extension |
1..* | Extension | Extension Slice: Unordered, Closed by value:url Constraints: ext-1 | |
| extension:type |
1..1 | Extension | indel | snp | unknown Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
 extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "type" | |
| value[x] |
0..1 | code | indel | snp | unknown Binding: R4B_quality_type_for_R5 (0.0.1-snapshot-2) (required): Type for quality | |
| extension:standardSequence |
0..1 | Extension | Standard sequence for comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "standardSequence" | |
| value[x] |
0..1 | CodeableConcept | Standard sequence for comparison Binding: R4B_sequence_quality_standardSequence_for_R5 (0.0.1-snapshot-2) (example): Reference identifier for standard sequence | |
| extension:start |
0..1 | Extension | Start position of the sequence Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "start" | |
| value[x] |
0..1 | integer | Start position of the sequence | |
| extension:end |
0..1 | Extension | End position of the sequence Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "end" | |
| value[x] |
0..1 | integer | End position of the sequence | |
| extension:score |
0..1 | Extension | Quality score for the comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | Quantity | Quality score for the comparison | |
| extension:method |
0..1 | Extension | Method to get quality Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "method" | |
| value[x] |
0..1 | CodeableConcept | Method to get quality Binding: R4B_sequence_quality_method_for_R5 (0.0.1-snapshot-2) (example): How to get the numerical score | |
| extension:truthTP |
0..1 | Extension | True positives from the perspective of the truth data Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "truthTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the truth data | |
| extension:queryTP |
0..1 | Extension | True positives from the perspective of the query data Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "queryTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the query data | |
| extension:truthFN |
0..1 | Extension | False negatives Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "truthFN" | |
| value[x] |
0..1 | decimal | False negatives | |
| extension:queryFP |
0..1 | Extension | False positives Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "queryFP" | |
| value[x] |
0..1 | decimal | False positives | |
| extension:gtFP |
0..1 | Extension | False positives where the non-REF alleles in the Truth and Query Call Sets match Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "gtFP" | |
| value[x] |
0..1 | decimal | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| extension:precision |
0..1 | Extension | Precision of comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of comparison | |
| extension:recall |
0..1 | Extension | Recall of comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "recall" | |
| value[x] |
0..1 | decimal | Recall of comparison | |
| extension:fScore |
0..1 | Extension | F-score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "fScore" | |
| value[x] |
0..1 | decimal | F-score | |
| extension:roc |
0..1 | Extension | Receiver Operator Characteristic (ROC) Curve Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| Slices for extension |
0..* | Extension | Extension Slice: Unordered, Closed by value:url Constraints: ext-1 | |
| extension:score |
0..* | Extension | Genotype quality score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | integer | Genotype quality score | |
| extension:numTP |
0..* | Extension | Roc score true positive numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numTP" | |
| value[x] |
0..1 | integer | Roc score true positive numbers | |
| extension:numFP |
0..* | Extension | Roc score false positive numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numFP" | |
| value[x] |
0..1 | integer | Roc score false positive numbers | |
| extension:numFN |
0..* | Extension | Roc score false negative numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numFN" | |
| value[x] |
0..1 | integer | Roc score false negative numbers | |
| extension:precision |
0..* | Extension | Precision of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of the GQ score | |
| extension:sensitivity |
0..* | Extension | Sensitivity of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "sensitivity" | |
| value[x] |
0..1 | decimal | Sensitivity of the GQ score | |
| extension:fMeasure |
0..* | Extension | FScore of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "fMeasure" | |
| value[x] |
0..1 | decimal | FScore of the GQ score | |
| url |
1..1 | uri | "roc" | |
  value[x] |
0..1 | Value of extension | ||
| valueBase64Binary |
base64Binary | |||
| valueBoolean |
boolean | |||
 valueCanonical |
canonical(Any) | |||
| valueCode |
code | |||
| valueDate |
date | |||
| valueDateTime |
dateTime | |||
| valueDecimal |
decimal | |||
| valueId |
id | |||
| valueInstant |
instant | |||
| valueInteger |
integer | |||
| valueInteger64 |
integer64 | |||
| valueMarkdown |
markdown | |||
| valueOid |
oid | |||
| valuePositiveInt |
positiveInt | |||
| valueString |
string | |||
| valueTime |
time | |||
| valueUnsignedInt |
unsignedInt | |||
| valueUri |
uri | |||
| valueUrl |
url | |||
| valueUuid |
uuid | |||
| valueAddress |
Address | |||
| valueAge |
Age | |||
| valueAnnotation |
Annotation | |||
| valueAttachment |
Attachment | |||
| valueCodeableConcept |
CodeableConcept | |||
| valueCodeableReference |
CodeableReference | |||
| valueCoding |
Coding | |||
| valueContactPoint |
ContactPoint | |||
| valueCount |
Count | |||
| valueDistance |
Distance | |||
| valueDuration |
Duration | |||
| valueHumanName |
HumanName | |||
| valueIdentifier |
Identifier | |||
| valueMoney |
Money | |||
| valuePeriod |
Period | |||
| valueQuantity |
Quantity | |||
| valueRange |
Range | |||
| valueRatio |
Ratio | |||
| valueRatioRange |
RatioRange | |||
| valueReference |
Reference(Any) | |||
| valueSampledData |
SampledData | |||
| valueSignature |
Signature | |||
| valueTiming |
Timing | |||
| valueContactDetail |
ContactDetail | |||
| valueDataRequirement |
DataRequirement | |||
| valueExpression |
Expression | |||
| valueParameterDefinition |
ParameterDefinition | |||
| valueRelatedArtifact |
RelatedArtifact | |||
| valueTriggerDefinition |
TriggerDefinition | |||
| valueUsageContext |
UsageContext | |||
| valueAvailability |
Availability | |||
| valueExtendedContactDetail |
ExtendedContactDetail | |||
| valueDosage |
Dosage | |||
| valueMeta |
Meta | |||
| url |
1..1 | uri | "http://hl7.org/fhir/4.3/StructureDefinition/extension-MolecularSequence.quality" | |
 value[x] |
0..1 | Value of extension | ||
| valueBase64Binary |
base64Binary | |||
| valueBoolean |
boolean | |||
| valueCanonical |
canonical(Any) | |||
| valueCode |
code | |||
| valueDate |
date | |||
| valueDateTime |
dateTime | |||
| valueDecimal |
decimal | |||
| valueId |
id | |||
| valueInstant |
instant | |||
| valueInteger |
integer | |||
| valueInteger64 |
integer64 | |||
| valueMarkdown |
markdown | |||
| valueOid |
oid | |||
| valuePositiveInt |
positiveInt | |||
| valueString |
string | |||
| valueTime |
time | |||
| valueUnsignedInt |
unsignedInt | |||
| valueUri |
uri | |||
| valueUrl |
url | |||
| valueUuid |
uuid | |||
| valueAddress |
Address | |||
| valueAge |
Age | |||
| valueAnnotation |
Annotation | |||
| valueAttachment |
Attachment | |||
| valueCodeableConcept |
CodeableConcept | |||
| valueCodeableReference |
CodeableReference | |||
| valueCoding |
Coding | |||
| valueContactPoint |
ContactPoint | |||
| valueCount |
Count | |||
| valueDistance |
Distance | |||
| valueDuration |
Duration | |||
| valueHumanName |
HumanName | |||
| valueIdentifier |
Identifier | |||
| valueMoney |
Money | |||
| valuePeriod |
Period | |||
| valueQuantity |
Quantity | |||
| valueRange |
Range | |||
| valueRatio |
Ratio | |||
| valueRatioRange |
RatioRange | |||
| valueReference |
Reference(Any) | |||
| valueSampledData |
SampledData | |||
| valueSignature |
Signature | |||
| valueTiming |
Timing | |||
| valueContactDetail |
ContactDetail | |||
| valueDataRequirement |
DataRequirement | |||
| valueExpression |
Expression | |||
| valueParameterDefinition |
ParameterDefinition | |||
| valueRelatedArtifact |
RelatedArtifact | |||
| valueTriggerDefinition |
TriggerDefinition | |||
| valueUsageContext |
UsageContext | |||
| valueAvailability |
Availability | |||
| valueExtendedContactDetail |
ExtendedContactDetail | |||
| valueDosage |
Dosage | |||
| valueMeta |
Meta | |||
| Documentation for this format | ||||
This structure is derived from Extension
Summary
Simple Extension with the type base64Binary, boolean, canonical, code, date, dateTime, decimal, id, instant, integer, integer64, markdown, oid, positiveInt, string, time, unsignedInt, uri, url, uuid, Address, Age, Annotation, Attachment, CodeableConcept, CodeableReference, Coding, ContactPoint, Count, Distance, Duration, HumanName, Identifier, Money, Period, Quantity, Range, Ratio, RatioRange, Reference, SampledData, Signature, Timing, ContactDetail, DataRequirement, Expression, ParameterDefinition, RelatedArtifact, TriggerDefinition, UsageContext, Availability, ExtendedContactDetail, Dosage, Meta: This cross-version extension represents MolecularSequence.quality from http://hl7.org/fhir/StructureDefinition/MolecularSequence|4.3.0 for use in FHIR R5.
Maturity: 0
Differential View
This structure is derived from Extension
| Name | Flags | Card. | Type | Description & Constraints Filter: |
|---|---|---|---|---|
| Extension |
0..* | Extension(5.0.0) | An set of value as quality of sequence | |
| Slices for extension |
1..* | Extension | Extension Slice: Unordered, Closed by value:url | |
| extension:type |
1..1 | Extension | indel | snp | unknown | |
| url |
1..1 | uri | "type" | |
| value[x] |
0..1 | code | indel | snp | unknown Binding: R4B_quality_type_for_R5 (0.0.1-snapshot-2) (required): Type for quality | |
| extension:standardSequence |
0..1 | Extension | Standard sequence for comparison | |
| url |
1..1 | uri | "standardSequence" | |
| value[x] |
0..1 | CodeableConcept | Standard sequence for comparison Binding: R4B_sequence_quality_standardSequence_for_R5 (0.0.1-snapshot-2) (example): Reference identifier for standard sequence | |
| extension:start |
0..1 | Extension | Start position of the sequence | |
| url |
1..1 | uri | "start" | |
| value[x] |
0..1 | integer | Start position of the sequence | |
| extension:end |
0..1 | Extension | End position of the sequence | |
| url |
1..1 | uri | "end" | |
| value[x] |
0..1 | integer | End position of the sequence | |
| extension:score |
0..1 | Extension | Quality score for the comparison | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | Quantity | Quality score for the comparison | |
| extension:method |
0..1 | Extension | Method to get quality | |
| url |
1..1 | uri | "method" | |
| value[x] |
0..1 | CodeableConcept | Method to get quality Binding: R4B_sequence_quality_method_for_R5 (0.0.1-snapshot-2) (example): How to get the numerical score | |
| extension:truthTP |
0..1 | Extension | True positives from the perspective of the truth data | |
| url |
1..1 | uri | "truthTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the truth data | |
| extension:queryTP |
0..1 | Extension | True positives from the perspective of the query data | |
| url |
1..1 | uri | "queryTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the query data | |
| extension:truthFN |
0..1 | Extension | False negatives | |
| url |
1..1 | uri | "truthFN" | |
| value[x] |
0..1 | decimal | False negatives | |
| extension:queryFP |
0..1 | Extension | False positives | |
| url |
1..1 | uri | "queryFP" | |
| value[x] |
0..1 | decimal | False positives | |
| extension:gtFP |
0..1 | Extension | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| url |
1..1 | uri | "gtFP" | |
| value[x] |
0..1 | decimal | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| extension:precision |
0..1 | Extension | Precision of comparison | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of comparison | |
| extension:recall |
0..1 | Extension | Recall of comparison | |
| url |
1..1 | uri | "recall" | |
| value[x] |
0..1 | decimal | Recall of comparison | |
| extension:fScore |
0..1 | Extension | F-score | |
| url |
1..1 | uri | "fScore" | |
| value[x] |
0..1 | decimal | F-score | |
| extension:roc |
0..1 | Extension | Receiver Operator Characteristic (ROC) Curve | |
| Slices for extension |
0..* | Extension | Extension Slice: Unordered, Closed by value:url | |
| extension:score |
0..* | Extension | Genotype quality score | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | integer | Genotype quality score | |
| extension:numTP |
0..* | Extension | Roc score true positive numbers | |
| url |
1..1 | uri | "numTP" | |
| value[x] |
0..1 | integer | Roc score true positive numbers | |
| extension:numFP |
0..* | Extension | Roc score false positive numbers | |
| url |
1..1 | uri | "numFP" | |
| value[x] |
0..1 | integer | Roc score false positive numbers | |
| extension:numFN |
0..* | Extension | Roc score false negative numbers | |
| url |
1..1 | uri | "numFN" | |
| value[x] |
0..1 | integer | Roc score false negative numbers | |
| extension:precision |
0..* | Extension | Precision of the GQ score | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of the GQ score | |
| extension:sensitivity |
0..* | Extension | Sensitivity of the GQ score | |
| url |
1..1 | uri | "sensitivity" | |
| value[x] |
0..1 | decimal | Sensitivity of the GQ score | |
| extension:fMeasure |
0..* | Extension | FScore of the GQ score | |
| url |
1..1 | uri | "fMeasure" | |
| value[x] |
0..1 | decimal | FScore of the GQ score | |
| url |
1..1 | uri | "roc" | |
| url |
1..1 | uri | "http://hl7.org/fhir/4.3/StructureDefinition/extension-MolecularSequence.quality" | |
| Documentation for this format | ||||
Snapshot View
| Name | Flags | Card. | Type | Description & Constraints Filter: |
|---|---|---|---|---|
| Extension |
0..* | Extension(5.0.0) | An set of value as quality of sequence Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| Slices for extension |
1..* | Extension | Extension Slice: Unordered, Closed by value:url Constraints: ext-1 | |
| extension:type |
1..1 | Extension | indel | snp | unknown Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "type" | |
| value[x] |
0..1 | code | indel | snp | unknown Binding: R4B_quality_type_for_R5 (0.0.1-snapshot-2) (required): Type for quality | |
| extension:standardSequence |
0..1 | Extension | Standard sequence for comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "standardSequence" | |
| value[x] |
0..1 | CodeableConcept | Standard sequence for comparison Binding: R4B_sequence_quality_standardSequence_for_R5 (0.0.1-snapshot-2) (example): Reference identifier for standard sequence | |
| extension:start |
0..1 | Extension | Start position of the sequence Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "start" | |
| value[x] |
0..1 | integer | Start position of the sequence | |
| extension:end |
0..1 | Extension | End position of the sequence Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "end" | |
| value[x] |
0..1 | integer | End position of the sequence | |
| extension:score |
0..1 | Extension | Quality score for the comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | Quantity | Quality score for the comparison | |
| extension:method |
0..1 | Extension | Method to get quality Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "method" | |
| value[x] |
0..1 | CodeableConcept | Method to get quality Binding: R4B_sequence_quality_method_for_R5 (0.0.1-snapshot-2) (example): How to get the numerical score | |
| extension:truthTP |
0..1 | Extension | True positives from the perspective of the truth data Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "truthTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the truth data | |
| extension:queryTP |
0..1 | Extension | True positives from the perspective of the query data Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "queryTP" | |
| value[x] |
0..1 | decimal | True positives from the perspective of the query data | |
| extension:truthFN |
0..1 | Extension | False negatives Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "truthFN" | |
| value[x] |
0..1 | decimal | False negatives | |
| extension:queryFP |
0..1 | Extension | False positives Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "queryFP" | |
| value[x] |
0..1 | decimal | False positives | |
| extension:gtFP |
0..1 | Extension | False positives where the non-REF alleles in the Truth and Query Call Sets match Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "gtFP" | |
| value[x] |
0..1 | decimal | False positives where the non-REF alleles in the Truth and Query Call Sets match | |
| extension:precision |
0..1 | Extension | Precision of comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of comparison | |
| extension:recall |
0..1 | Extension | Recall of comparison Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "recall" | |
| value[x] |
0..1 | decimal | Recall of comparison | |
| extension:fScore |
0..1 | Extension | F-score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "fScore" | |
| value[x] |
0..1 | decimal | F-score | |
| extension:roc |
0..1 | Extension | Receiver Operator Characteristic (ROC) Curve Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| Slices for extension |
0..* | Extension | Extension Slice: Unordered, Closed by value:url Constraints: ext-1 | |
| extension:score |
0..* | Extension | Genotype quality score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "score" | |
| value[x] |
0..1 | integer | Genotype quality score | |
| extension:numTP |
0..* | Extension | Roc score true positive numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numTP" | |
| value[x] |
0..1 | integer | Roc score true positive numbers | |
| extension:numFP |
0..* | Extension | Roc score false positive numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numFP" | |
| value[x] |
0..1 | integer | Roc score false positive numbers | |
| extension:numFN |
0..* | Extension | Roc score false negative numbers Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "numFN" | |
| value[x] |
0..1 | integer | Roc score false negative numbers | |
| extension:precision |
0..* | Extension | Precision of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "precision" | |
| value[x] |
0..1 | decimal | Precision of the GQ score | |
| extension:sensitivity |
0..* | Extension | Sensitivity of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "sensitivity" | |
| value[x] |
0..1 | decimal | Sensitivity of the GQ score | |
| extension:fMeasure |
0..* | Extension | FScore of the GQ score Constraints: ext-1 | |
| id |
0..1 | id | Unique id for inter-element referencing | |
| extension |
0..* | Extension | Additional content defined by implementations Slice: Unordered, Open by value:url Constraints: ext-1 | |
| url |
1..1 | uri | "fMeasure" | |
| value[x] |
0..1 | decimal | FScore of the GQ score | |
| url |
1..1 | uri | "roc" | |
| value[x] |
0..1 | Value of extension | ||
| valueBase64Binary |
base64Binary | |||
| valueBoolean |
boolean | |||
| valueCanonical |
canonical(Any) | |||
| valueCode |
code | |||
| valueDate |
date | |||
| valueDateTime |
dateTime | |||
| valueDecimal |
decimal | |||
| valueId |
id | |||
| valueInstant |
instant | |||
| valueInteger |
integer | |||
| valueInteger64 |
integer64 | |||
| valueMarkdown |
markdown | |||
| valueOid |
oid | |||
| valuePositiveInt |
positiveInt | |||
| valueString |
string | |||
| valueTime |
time | |||
| valueUnsignedInt |
unsignedInt | |||
| valueUri |
uri | |||
| valueUrl |
url | |||
| valueUuid |
uuid | |||
| valueAddress |
Address | |||
| valueAge |
Age | |||
| valueAnnotation |
Annotation | |||
| valueAttachment |
Attachment | |||
| valueCodeableConcept |
CodeableConcept | |||
| valueCodeableReference |
CodeableReference | |||
| valueCoding |
Coding | |||
| valueContactPoint |
ContactPoint | |||
| valueCount |
Count | |||
| valueDistance |
Distance | |||
| valueDuration |
Duration | |||
| valueHumanName |
HumanName | |||
| valueIdentifier |
Identifier | |||
| valueMoney |
Money | |||
| valuePeriod |
Period | |||
| valueQuantity |
Quantity | |||
| valueRange |
Range | |||
| valueRatio |
Ratio | |||
| valueRatioRange |
RatioRange | |||
| valueReference |
Reference(Any) | |||
| valueSampledData |
SampledData | |||
| valueSignature |
Signature | |||
| valueTiming |
Timing | |||
| valueContactDetail |
ContactDetail | |||
| valueDataRequirement |
DataRequirement | |||
| valueExpression |
Expression | |||
| valueParameterDefinition |
ParameterDefinition | |||
| valueRelatedArtifact |
RelatedArtifact | |||
| valueTriggerDefinition |
TriggerDefinition | |||
| valueUsageContext |
UsageContext | |||
| valueAvailability |
Availability | |||
| valueExtendedContactDetail |
ExtendedContactDetail | |||
| valueDosage |
Dosage | |||
| valueMeta |
Meta | |||
| url |
1..1 | uri | "http://hl7.org/fhir/4.3/StructureDefinition/extension-MolecularSequence.quality" | |
| value[x] |
0..1 | Value of extension | ||
| valueBase64Binary |
base64Binary | |||
| valueBoolean |
boolean | |||
| valueCanonical |
canonical(Any) | |||
| valueCode |
code | |||
| valueDate |
date | |||
| valueDateTime |
dateTime | |||
| valueDecimal |
decimal | |||
| valueId |
id | |||
| valueInstant |
instant | |||
| valueInteger |
integer | |||
| valueInteger64 |
integer64 | |||
| valueMarkdown |
markdown | |||
| valueOid |
oid | |||
| valuePositiveInt |
positiveInt | |||
| valueString |
string | |||
| valueTime |
time | |||
| valueUnsignedInt |
unsignedInt | |||
| valueUri |
uri | |||
| valueUrl |
url | |||
| valueUuid |
uuid | |||
| valueAddress |
Address | |||
| valueAge |
Age | |||
| valueAnnotation |
Annotation | |||
| valueAttachment |
Attachment | |||
| valueCodeableConcept |
CodeableConcept | |||
| valueCodeableReference |
CodeableReference | |||
| valueCoding |
Coding | |||
| valueContactPoint |
ContactPoint | |||
| valueCount |
Count | |||
| valueDistance |
Distance | |||
| valueDuration |
Duration | |||
| valueHumanName |
HumanName | |||
| valueIdentifier |
Identifier | |||
| valueMoney |
Money | |||
| valuePeriod |
Period | |||
| valueQuantity |
Quantity | |||
| valueRange |
Range | |||
| valueRatio |
Ratio | |||
| valueRatioRange |
RatioRange | |||
| valueReference |
Reference(Any) | |||
| valueSampledData |
SampledData | |||
| valueSignature |
Signature | |||
| valueTiming |
Timing | |||
| valueContactDetail |
ContactDetail | |||
| valueDataRequirement |
DataRequirement | |||
| valueExpression |
Expression | |||
| valueParameterDefinition |
ParameterDefinition | |||
| valueRelatedArtifact |
RelatedArtifact | |||
| valueTriggerDefinition |
TriggerDefinition | |||
| valueUsageContext |
UsageContext | |||
| valueAvailability |
Availability | |||
| valueExtendedContactDetail |
ExtendedContactDetail | |||
| valueDosage |
Dosage | |||
| valueMeta |
Meta | |||
| Documentation for this format | ||||
Other representations of profile: CSV, Excel, Schematron
| Path | Conformance | ValueSet | URI |
| Extension.extension:type.value[x] | required | R4B_quality_type_for_R5http://hl7.org/fhir/4.3/ValueSet/R4B-quality-type-for-R5|0.0.1-snapshot-2From this IG | |
| Extension.extension:standardSequence.value[x] | example | R4B_sequence_quality_standardSequence_for_R5(a valid code from https://precision.fda.gov/files/)http://hl7.org/fhir/4.3/ValueSet/R4B-sequence-quality-standardSequence-for-R5|0.0.1-snapshot-2From this IG | |
| Extension.extension:method.value[x] | example | R4B_sequence_quality_method_for_R5http://hl7.org/fhir/4.3/ValueSet/R4B-sequence-quality-method-for-R5|0.0.1-snapshot-2From this IG |
| Id | Grade | Path(s) | Details | Requirements |
| ele-1 | error | Extension, Extension.extension, Extension.extension:type, Extension.extension:type.extension, Extension.extension:type.value[x], Extension.extension:standardSequence, Extension.extension:standardSequence.extension, Extension.extension:standardSequence.value[x], Extension.extension:start, Extension.extension:start.extension, Extension.extension:start.value[x], Extension.extension:end, Extension.extension:end.extension, Extension.extension:end.value[x], Extension.extension:score, Extension.extension:score.extension, Extension.extension:score.value[x], Extension.extension:method, Extension.extension:method.extension, Extension.extension:method.value[x], Extension.extension:truthTP, Extension.extension:truthTP.extension, Extension.extension:truthTP.value[x], Extension.extension:queryTP, Extension.extension:queryTP.extension, Extension.extension:queryTP.value[x], Extension.extension:truthFN, Extension.extension:truthFN.extension, Extension.extension:truthFN.value[x], Extension.extension:queryFP, Extension.extension:queryFP.extension, Extension.extension:queryFP.value[x], Extension.extension:gtFP, Extension.extension:gtFP.extension, Extension.extension:gtFP.value[x], Extension.extension:precision, Extension.extension:precision.extension, Extension.extension:precision.value[x], Extension.extension:recall, Extension.extension:recall.extension, Extension.extension:recall.value[x], Extension.extension:fScore, Extension.extension:fScore.extension, Extension.extension:fScore.value[x], Extension.extension:roc, Extension.extension:roc.extension, Extension.extension:roc.extension:score, Extension.extension:roc.extension:score.extension, Extension.extension:roc.extension:score.value[x], Extension.extension:roc.extension:numTP, Extension.extension:roc.extension:numTP.extension, Extension.extension:roc.extension:numTP.value[x], Extension.extension:roc.extension:numFP, Extension.extension:roc.extension:numFP.extension, Extension.extension:roc.extension:numFP.value[x], Extension.extension:roc.extension:numFN, Extension.extension:roc.extension:numFN.extension, Extension.extension:roc.extension:numFN.value[x], Extension.extension:roc.extension:precision, Extension.extension:roc.extension:precision.extension, Extension.extension:roc.extension:precision.value[x], Extension.extension:roc.extension:sensitivity, Extension.extension:roc.extension:sensitivity.extension, Extension.extension:roc.extension:sensitivity.value[x], Extension.extension:roc.extension:fMeasure, Extension.extension:roc.extension:fMeasure.extension, Extension.extension:roc.extension:fMeasure.value[x], Extension.extension:roc.value[x], Extension.value[x] | All FHIR elements must have a @value or children : hasValue() or (children().count() > id.count()) | |
| ext-1 | error | Extension, Extension.extension, Extension.extension:type, Extension.extension:type.extension, Extension.extension:standardSequence, Extension.extension:standardSequence.extension, Extension.extension:start, Extension.extension:start.extension, Extension.extension:end, Extension.extension:end.extension, Extension.extension:score, Extension.extension:score.extension, Extension.extension:method, Extension.extension:method.extension, Extension.extension:truthTP, Extension.extension:truthTP.extension, Extension.extension:queryTP, Extension.extension:queryTP.extension, Extension.extension:truthFN, Extension.extension:truthFN.extension, Extension.extension:queryFP, Extension.extension:queryFP.extension, Extension.extension:gtFP, Extension.extension:gtFP.extension, Extension.extension:precision, Extension.extension:precision.extension, Extension.extension:recall, Extension.extension:recall.extension, Extension.extension:fScore, Extension.extension:fScore.extension, Extension.extension:roc, Extension.extension:roc.extension, Extension.extension:roc.extension:score, Extension.extension:roc.extension:score.extension, Extension.extension:roc.extension:numTP, Extension.extension:roc.extension:numTP.extension, Extension.extension:roc.extension:numFP, Extension.extension:roc.extension:numFP.extension, Extension.extension:roc.extension:numFN, Extension.extension:roc.extension:numFN.extension, Extension.extension:roc.extension:precision, Extension.extension:roc.extension:precision.extension, Extension.extension:roc.extension:sensitivity, Extension.extension:roc.extension:sensitivity.extension, Extension.extension:roc.extension:fMeasure, Extension.extension:roc.extension:fMeasure.extension | Must have either extensions or value[x], not both : extension.exists() != value.exists() |
IG © 2025+ FHIR Infrastructure. Package hl7.fhir.uv.xver-r4b.r5#0.0.1-snapshot-2 based on FHIR 5.0.0. Generated 2025-09-13
Links: Table of Contents |
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