Extension-geneticscigar.xml

CIGAR

  
  
  
  
  
    
      
      
    
  
  A sequence of of base lengths and the associated operation, used to indicate which bases
   align (either a match/mismatch) with the reference, are deleted from the reference, and
   are insertions that are not in the reference.
  
  
  
    
    
    
  
  
    
    
    
  
  
  
  
  
  
  
    
      
      
      A sequence of of base lengths and the associated operation, used to indicate which bases
       align (either a match/mismatch) with the reference, are deleted from the reference, and
       are insertions that are not in the reference.
      
      
      
        
      
      
        
        
      
      
        
        
      
    
    
      
      
      
      
      
      
      
        
      
      
        
        
      
    
    
      
      
      May be used to represent additional information that is not part of the basic definition
       of the element. In order 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 is allowed to define an extension, there is a set of requirements that SHALL
       be met as part of the definition of the extension.
      There can be no stigma associated with the use of extensions by any application, project,
       or standard - regardless of the institution or jurisdiction that uses or defines the extensions.
        The use of extensions is what allows the FHIR specification to retain a core level of
       simplicity for everyone.
      
      
      
      
      
        
      
      
        
        
      
    
    
      
      
      
      
      The definition may point directly to a computable or human-readable definition of the

<StructureDefinition xmlns="http://hl7.org/fhir">
  <id value="geneticsCIGAR"/>
  <url value="http://hl7.org/fhir/StructureDefinition/geneticsCIGAR"/>
  <name value="CIGAR"/>
  <status value="draft"/>
  <publisher value="Health Level Seven International (Clinical Genomics)"/>
  <contact>
    <telecom>
      <system value="other"/>
      <value value="http://www.hl7.org/Special/committees/clingenomics"/>
    </telecom>
  </contact>
  <date value="2015-03-18"/>
  <description value="Extended CIGAR string for aligning the sequence with reference bases. See detailed documentation
   [here](http://support.illumina.com/help/SequencingAnalysisWorkflow/Content/Vault/Informatics/Sequenc
  ing_Analysis/CASAVA/swSEQ_mCA_ExtendedCIGARFormat.htm)."/>
  <fhirVersion value="1.0.2"/>
  <mapping>
    <identity value="v2"/>
    <uri value="http://hl7.org/v2"/>
    <name value="HL7 v2"/>
  </mapping>
  <mapping>
    <identity value="rim"/>
    <uri value="http://hl7.org/v3"/>
    <name value="RIM"/>
  </mapping>
  <kind value="datatype"/>
  <constrainedType value="Extension"/>
  <abstract value="false"/>
  <contextType value="resource"/>
  <context value="Observation"/>
  <base value="http://hl7.org/fhir/StructureDefinition/Extension"/>
  <snapshot>
    <element>
      <path value="Extension"/>
      <short value="CIGAR"/>
      <definition value="Extended CIGAR string for aligning the sequence with reference bases. See detailed documentation

       [here](http://support.illumina.com/help/SequencingAnalysisWorkflow/Content/Vault/Informatics/Sequenc
      ing_Analysis/CASAVA/swSEQ_mCA_ExtendedCIGARFormat.htm)."/>
      <min value="0"/>
      <max value="1"/>
      <base>
        <path value="Extension"/>
        <min value="0"/>
        <max value="*"/>
      </base>
      <type>
        <code value="Extension"/>
      </type>
      <mapping>
        <identity value="v2"/>
        <map value="N/A"/>
      </mapping>
      <mapping>
        <identity value="rim"/>
        <map value="N/A"/>
      </mapping>
    </element>
    <element>
      <path value="Extension.id"/>
      <representation value="xmlAttr"/>
      <short value="xml:id (or equivalent in JSON)"/>
      <definition value="unique id for the element within a resource (for internal references)."/>
      <min value="0"/>
      <max value="1"/>
      <base>
        <path value="Extension.id"/>
        <min value="0"/>
        <max value="1"/>
      </base>
      <type>
        <code value="id"/>
      </type>
      <mapping>
        <identity value="rim"/>
        <map value="n/a"/>
      </mapping>
    </element>
    <element>
      <path value="Extension.extension"/>
      <name value="extension"/>
      <short value="Extension"/>
      <definition value="An Extension"/>
      <min value="0"/>
      <max value="0"/>
      <base>
        <path value="Extension.extension"/>
        <min value="0"/>
        <max value="*"/>
      </base>
      <type>
        <code value="Extension"/>
      </type>
    </element>
    <element>
      <path value="Extension.url"/>
      <representation value="xmlAttr"/>
      <short value="identifies the meaning of the extension"/>
      <definition value="Source of the definition for the extension code - a logical name or a URL."/>
      <comments value="The definition may point directly to a computable or human-readable definition of the
       extensibility codes, or it may be a logical URI as declared in some other specification.
       The definition should be version specific.  This will ideally be the URI for the Resource
       Profile defining the extension, with the code for the extension after a #."/>
      
      
      
        
      
      
      
        
        
      
    
    
      
      
      Value of extension - may be a resource or one of a constrained set of the data types (see

      <min value="1"/>
      <max value="1"/>
      <base>
        <path value="Extension.url"/>
        <min value="1"/>
        <max value="1"/>
      </base>
      <type>
        <code value="uri"/>
      </type>
      <fixedUri value="http://hl7.org/fhir/StructureDefinition/geneticsCIGAR"/>
      <mapping>
        <identity value="rim"/>
        <map value="N/A"/>
      </mapping>
    </element>
    <element>
      <path value="Extension.valueString"/>
      <short value="Value of extension"/>
      <definition value="Value of extension - may be a resource or one of a constrained set of the data types (see
       Extensibility in the spec for list)."/>
      
      
      
        
      
      
        
        
      
    
  
  
    
      
      
      A sequence of of base lengths and the associated operation, used to indicate which bases
       align (either a match/mismatch) with the reference, are deleted from the reference, and
       are insertions that are not in the reference.
      
      
      
        
      
      
        
        
      
      
        
        
      
    
    
      
      
        
      
      
    
    
      
      
        
      
    
  

      <min value="1"/>
      <max value="1"/>
      <base>
        <path value="Extension.value[x]"/>
        <min value="0"/>
        <max value="1"/>
      </base>
      <type>
        <code value="string"/>
      </type>
      <mapping>
        <identity value="rim"/>
        <map value="N/A"/>
      </mapping>
    </element>
  </snapshot>
  <differential>
    <element>
      <path value="Extension"/>
      <short value="CIGAR"/>
      <definition value="Extended CIGAR string for aligning the sequence with reference bases. See detailed documentation
       [here](http://support.illumina.com/help/SequencingAnalysisWorkflow/Content/Vault/Informatics/Sequenc
      ing_Analysis/CASAVA/swSEQ_mCA_ExtendedCIGARFormat.htm)."/>
      <min value="0"/>
      <max value="1"/>
      <type>
        <code value="Extension"/>
      </type>
      <mapping>
        <identity value="v2"/>
        <map value="N/A"/>
      </mapping>
      <mapping>
        <identity value="rim"/>
        <map value="N/A"/>
      </mapping>
    </element>
    <element>
      <path value="Extension.extension"/>
      <name value="extension"/>
      <max value="0"/>
    </element>
    <element>
      <path value="Extension.url"/>
      <type>
        <code value="uri"/>
      </type>
      <fixedUri value="http://hl7.org/fhir/StructureDefinition/geneticsCIGAR"/>
    </element>
    <element>
      <path value="Extension.value[x]"/>
      <min value="1"/>
      <type>
        <code value="string"/>
      </type>
    </element>
  </differential>


</StructureDefinition>

</

StructureDefinition

>