0.1.0 - ci-build

CQDG_FHIR_IG - Local Development build (v0.1.0) built by the FHIR (HL7® FHIR® Standard) Build Tools. See the Directory of published versions

: Ferlab.bio Example/cqdg-task - TTL Representation

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@prefix fhir: <http://hl7.org/fhir/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .

# - resource -------------------------------------------------------------------

 a fhir:Task ;
  fhir:nodeRole fhir:treeRoot ;
  fhir:id [ fhir:v "CQDGTaskExample"] ; # 
  fhir:meta [
    ( fhir:profile [
fhir:v "https://fhir.cqdg.ca/StructureDefinition/cqgc-analysis-task"^^xsd:anyURI ;
fhir:link <https://fhir.cqdg.ca/StructureDefinition/cqgc-analysis-task>     ] )
  ] ; # 
  fhir:text [
fhir:status [ fhir:v "extensions" ] ;
fhir:div "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: Task CQDGTaskExample</b></p><a name=\"CQDGTaskExample\"> </a><a name=\"hcCQDGTaskExample\"> </a><a name=\"CQDGTaskExample-en-US\"> </a><blockquote><p><b>Ferlab.bio StructureDefinition/workflow</b></p><ul><li>workflowName: Dragen</li><li>genomeBuild: <a href=\"CodeSystem-genome-build.html#genome-build-GRCh38\">Ferlab.bio CodeSystem/genome-build GRCh38</a>: GRCh38</li><li>workflowVersion: SW null</li></ul></blockquote><blockquote><p><b>Ferlab.bio StructureDefinition/sequencing-experiment</b></p><ul><li>runName: 1898</li><li>platform: Illumina NovaSeq 6000 S4 PE150</li><li>isPairedEnd: true</li><li>readLength: 151,8,8,151</li><li>experimentalStrategy: <a href=\"CodeSystem-experimental-strategy.html#experimental-strategy-WXS\">Ferlab.bio CodeSystem/experimental-strategy WXS</a>: Whole Exome Sequencing</li><li>runDate: 2020-11-06</li><li>labAliquotId: MPS12348274-B04</li><li>ldmSampleId: S03344</li></ul></blockquote><p><b>status</b>: Completed</p><p><b>intent</b>: order</p><p><b>priority</b>: Routine</p><p><b>code</b>: <span title=\"Codes:{https://fhir.cqdg.ca/CodeSystem/bioinfo-analysis-code RABA}\">Reads Alignement Bioinformatic Analysis</span></p><p><b>requester</b>: <a href=\"Organization-OrganizationExample.html\">Organization CQDG</a></p><p><b>owner</b>: <a href=\"Organization-OrganizationExample.html\">Organization CQDG</a></p><h3>Inputs</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Type</b></td><td><b>Value[x]</b></td></tr><tr><td style=\"display: none\">*</td><td><span title=\"Codes:\">Analysed sample</span></td><td><a href=\"Specimen-SpecimenExample.html\">Submitter Sample ID: SpecimenExample</a></td></tr></table><blockquote><p><b>output</b></p><p><b>type</b>: <span title=\"Codes:{https://fhir.cqdg.ca/CodeSystem/data-type Aligned-reads}\">Aligned Reads</span></p><p><b>value</b>: <a href=\"DocumentReference-DocumentReferenceExample1.html\">DocumentReference: status = current; type = Sequencing Data Supplement; category = Genomics; securityLabel = test</a></p></blockquote><blockquote><p><b>output</b></p><p><b>type</b>: <span title=\"Codes:{https://fhir.cqdg.ca/CodeSystem/data-type SNV}\">SNV</span></p><p><b>value</b>: <a href=\"DocumentReference-DocumentReferenceExample1.html\">DocumentReference: status = current; type = Sequencing Data Supplement; category = Genomics; securityLabel = test</a></p></blockquote><blockquote><p><b>output</b></p><p><b>type</b>: <span title=\"Codes:{https://fhir.cqdg.ca/CodeSystem/data-type Germline-CNV}\">Germline CNV</span></p><p><b>value</b>: <a href=\"DocumentReference-DocumentReferenceExample2.html\">DocumentReference: status = current; type = Aligned Reads; category = Genomics; securityLabel = test</a></p></blockquote><blockquote><p><b>output</b></p><p><b>type</b>: <span title=\"Codes:{https://fhir.cqdg.ca/CodeSystem/data-type Sequencing-data-supplement}\">Sequencing-data-supplement</span></p><p><b>value</b>: <a href=\"DocumentReference-DocumentReferenceExample2.html\">DocumentReference: status = current; type = Aligned Reads; category = Genomics; securityLabel = test</a></p></blockquote></div>"
  ] ; # 
  fhir:extension ( [
    ( fhir:extension [
fhir:url [ fhir:v "workflowName"^^xsd:anyURI ] ;
fhir:value [ fhir:v "Dragen" ]     ] [
fhir:url [ fhir:v "genomeBuild"^^xsd:anyURI ] ;
fhir:value [
a fhir:Coding ;
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/genome-build"^^xsd:anyURI ] ;
fhir:code [ fhir:v "GRCh38" ] ;
fhir:display [ fhir:v "GRCh38" ]       ]     ] [
fhir:url [ fhir:v "workflowVersion"^^xsd:anyURI ] ;
fhir:value [ fhir:v "SW null" ]     ] ) ;
fhir:url [ fhir:v "https://fhir.cqdg.ca/StructureDefinition/workflowExtension"^^xsd:anyURI ]
  ] [
    ( fhir:extension [
fhir:url [ fhir:v "runName"^^xsd:anyURI ] ;
fhir:value [ fhir:v "1898" ]     ] [
fhir:url [ fhir:v "platform"^^xsd:anyURI ] ;
fhir:value [ fhir:v "Illumina NovaSeq 6000 S4 PE150" ]     ] [
fhir:url [ fhir:v "isPairedEnd"^^xsd:anyURI ] ;
fhir:value [ fhir:v "true"^^xsd:boolean ]     ] [
fhir:url [ fhir:v "readLength"^^xsd:anyURI ] ;
fhir:value [ fhir:v "151,8,8,151" ]     ] [
fhir:url [ fhir:v "experimentalStrategy"^^xsd:anyURI ] ;
fhir:value [
a fhir:Coding ;
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/experimental-strategy"^^xsd:anyURI ] ;
fhir:code [ fhir:v "WXS" ] ;
fhir:display [ fhir:v "Whole Exome Sequencing" ]       ]     ] [
fhir:url [ fhir:v "runDate"^^xsd:anyURI ] ;
fhir:value [ fhir:v "2020-11-06"^^xsd:date ]     ] [
fhir:url [ fhir:v "labAliquotId"^^xsd:anyURI ] ;
fhir:value [ fhir:v "MPS12348274-B04" ]     ] [
fhir:url [ fhir:v "ldmSampleId"^^xsd:anyURI ] ;
fhir:value [ fhir:v "S03344" ]     ] ) ;
fhir:url [ fhir:v "https://fhir.cqdg.ca/StructureDefinition/sequencingExperimentExtension"^^xsd:anyURI ]
  ] ) ; # 
  fhir:status [ fhir:v "completed"] ; # 
  fhir:intent [ fhir:v "order"] ; # 
  fhir:priority [ fhir:v "routine"] ; # 
  fhir:code [
    ( fhir:coding [
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/bioinfo-analysis-code"^^xsd:anyURI ] ;
fhir:code [ fhir:v "RABA" ] ;
fhir:display [ fhir:v "Reads Alignement Bioinformatic Analysis" ]     ] )
  ] ; # 
  fhir:requester [
fhir:reference [ fhir:v "Organization/OrganizationExample" ]
  ] ; # 
  fhir:owner [
fhir:reference [ fhir:v "Organization/OrganizationExample" ]
  ] ; # 
  fhir:input ( [
fhir:type [
fhir:text [ fhir:v "Analysed sample" ]     ] ;
fhir:value [
a fhir:Reference ;
fhir:reference [ fhir:v "Specimen/SpecimenExample" ] ;
fhir:display [ fhir:v "Submitter Sample ID: SpecimenExample" ]     ]
  ] ) ; # 
  fhir:output ( [
fhir:type [
      ( fhir:coding [
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/data-type"^^xsd:anyURI ] ;
fhir:code [ fhir:v "Aligned-reads" ] ;
fhir:display [ fhir:v "Aligned Reads" ]       ] )     ] ;
fhir:value [
a fhir:Reference ;
fhir:reference [ fhir:v "DocumentReference/DocumentReferenceExample1" ]     ]
  ] [
fhir:type [
      ( fhir:coding [
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/data-type"^^xsd:anyURI ] ;
fhir:code [ fhir:v "SNV" ] ;
fhir:display [ fhir:v "SNV" ]       ] )     ] ;
fhir:value [
a fhir:Reference ;
fhir:reference [ fhir:v "DocumentReference/DocumentReferenceExample1" ]     ]
  ] [
fhir:type [
      ( fhir:coding [
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/data-type"^^xsd:anyURI ] ;
fhir:code [ fhir:v "Germline-CNV" ] ;
fhir:display [ fhir:v "Germline CNV" ]       ] )     ] ;
fhir:value [
a fhir:Reference ;
fhir:reference [ fhir:v "DocumentReference/DocumentReferenceExample2" ]     ]
  ] [
fhir:type [
      ( fhir:coding [
fhir:system [ fhir:v "https://fhir.cqdg.ca/CodeSystem/data-type"^^xsd:anyURI ] ;
fhir:code [ fhir:v "Sequencing-data-supplement" ] ;
fhir:display [ fhir:v "Sequencing-data-supplement" ]       ] )     ] ;
fhir:value [
a fhir:Reference ;
fhir:reference [ fhir:v "DocumentReference/DocumentReferenceExample2" ]     ]
  ] ) . #