Genomics Reporting Implementation Guide
4.0.0-cibuild - CI Build

Genomics Reporting Implementation Guide, published by HL7 International / Clinical Genomics. This guide is not an authorized publication; it is the continuous build for version 4.0.0-cibuild built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/HL7/genomics-reporting/ and changes regularly. See the Directory of published versions

## : Variant Confidence Status Codes - XML Representation

Page standards status: Informative

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    <CodeSystem xmlns="http://hl7.org/fhir">
      <id value="variant-confidence-status-cs"/>
      <text>
        <status value="generated"/>
        <div xmlns="http://www.w3.org/1999/xhtml"><p class="res-header-id"><b>Generated Narrative: CodeSystem variant-confidence-status-cs</b></p><a name="variant-confidence-status-cs"> </a><a name="hcvariant-confidence-status-cs"> </a><p>This case-sensitive code system <code>http://terminology.hl7.org/CodeSystem/variant-confidence-status-cs</code> defines the following codes:</p><table class="codes"><tr><td style="white-space:nowrap"><b>Code</b></td><td><b>Display</b></td><td><b>Definition</b></td></tr><tr><td style="white-space:nowrap">high<a name="variant-confidence-status-cs-high"> </a></td><td>High</td><td>High confidence true positive variant call. Suitable for clinical reporting.</td></tr><tr><td style="white-space:nowrap">intermediate<a name="variant-confidence-status-cs-intermediate"> </a></td><td>Intermediate</td><td>Candidate true positive variant call. Unable to confirm without additional testing.</td></tr><tr><td style="white-space:nowrap">low<a name="variant-confidence-status-cs-low"> </a></td><td>Low</td><td>High confidence false positive variant call.</td></tr></table></div>
      </text>
      <extension
                 url="http://hl7.org/fhir/StructureDefinition/structuredefinition-wg">
        <valueCode value="cg"/>
      </extension>
      <extension
                 url="http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status">
        <valueCode value="informative">
          <extension
                     url="http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom">
            <valueCanonical
                            value="http://hl7.org/fhir/uv/genomics-reporting/ImplementationGuide/genomics-reporting"/>
          </extension>
        </valueCode>
      </extension>
      <url
           value="http://terminology.hl7.org/CodeSystem/variant-confidence-status-cs"/>
      <version value="4.0.0-cibuild"/>
      <name value="VariantConfidenceStatusCS"/>
      <title value="Variant Confidence Status Codes"/>
      <status value="active"/>
      <experimental value="true"/>
      <date value="2025-11-08T00:09:50+00:00"/>
      <publisher value="HL7 International / Clinical Genomics"/>
      <contact>
        <name value="HL7 International / Clinical Genomics"/>
        <telecom>
          <system value="url"/>
          <value value="http://www.hl7.org/Special/committees/clingenomics"/>
        </telecom>
        <telecom>
          <system value="email"/>
          <value value="cg@lists.HL7.org"/>
        </telecom>
      </contact>
      <description
                   value="A code that represents the confidence of a true positive variant call."/>
      <jurisdiction>
        <coding>
          <system value="http://unstats.un.org/unsd/methods/m49/m49.htm"/>
          <code value="001"/>
          <display value="World"/>
        </coding>
      </jurisdiction>
      <caseSensitive value="true"/>
      <content value="complete"/>
      <count value="3"/>
      <concept>
        <code value="high"/>
        <display value="High"/>
        <definition
                    value="High confidence true positive variant call. Suitable for clinical reporting."/>
      </concept>
      <concept>
        <code value="intermediate"/>
        <display value="Intermediate"/>
        <definition
                    value="Candidate true positive variant call. Unable to confirm without additional testing."/>
      </concept>
      <concept>
        <code value="low"/>
        <display value="Low"/>
        <definition value="High confidence false positive variant call."/>
      </concept>
    </CodeSystem>