Difference between revisions of "Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools"

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{|
 
{|
 
|align="left"|
 
|align="left"|
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<pre>
 +
<?xml version="1.0" encoding="UTF-8"?>
 +
<TemplateContainer authors="oslo_mgh" name="RANO_NEW"
 +
    version="1.0" description="RANO WITHOUT MEASURABLE DISEASE ASSESSMENT"
 +
    creationDate="2011-11-18" xsi:schemaLocation="gme://caCORE.caCORE/3.2/edu.northwestern.radiology.AIMTemplate AIMTemplate_v1rv18.xsd"
 +
    xmlns="gme://caCORE.caCORE/3.2/edu.northwestern.radiology.AIMTemplate"
 +
    xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
 +
  <Template name="RANO_NEW" version="1.0" authors="oslo_mgh"
 +
      description="Response Assessment in Neuro-Oncology" uid="123.987.32156.8454.1213156464.87987"
 +
      codeValue="RANO" codeMeaning="Response Assessment in Neuro-Oncology" codingSchemeDesignator="RANO"
 +
      creationDate="2011-11-18">
 +
    <Component label="2-Non-Measurable Disease" minCardinality="1" maxCardinality="1" itemNumber="1" shouldDisplay="true"
 +
        explanatoryText="Evaluation of Non-Measurable Disease" authors="mcpinho77">
 +
      <Inference annotatorConfidence="false"/>
 +
      <AllowedTerm codeMeaning="Stable Disease" codeValue="RANO1" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Progressive Disease" codeValue="RANO4" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Baseline" codeValue="RANO0" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Not Present" codeValue="RANO5" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Non-evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
    </Component>
 +
    <Component label="3-FLAIR" minCardinality="1" maxCardinality="1" itemNumber="2" shouldDisplay="true"
 +
          explanatoryText="Tumor Evaluation on FLAIR" authors="mcpinho77">
 +
      <Inference annotatorConfidence="false"/>
 +
      <AllowedTerm codeMeaning="Stable Disease" codeValue="RANO1" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Progressive Disease" codeValue="RANO4" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Baseline" codeValue="RANO0" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Not Present" codeValue="RANO5" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Non-evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
    </Component>
 +
    <Component label="1-Measurable Disease" minCardinality="1" maxCardinality="1" itemNumber="0"
 +
          shouldDisplay="true" explanatoryText="Presence or Absence of Measurable Lesions" authors="mcpinho77">
 +
      <Inference annotatorConfidence="false"/>
 +
      <AllowedTerm codeMeaning="Yes" codeValue="RANO7" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="No" codeValue="RANO8" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
      <AllowedTerm codeMeaning="Not Evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
 +
      </AllowedTerm>
 +
    </Component>
 +
  </Template>
 +
</TemplateContainer>
 +
</pre>
 
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|[[Image:AIM_template_demo.jpg|thumb|400px|Template-based annotation in ClearCanvas]]
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|[[Image:AIM_template_demo.jpg|thumb|400px|Template-based annotation in ClearCanvas for the annotation template defined on the left]]
 
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* ClearCanvas (NOT TCGA ClearCanvas!) DICOM conformance statement: http://www.clearcanvas.ca/dnn/Products/CommunityEdition/tabid/278/Default.aspx
 
* ClearCanvas (NOT TCGA ClearCanvas!) DICOM conformance statement: http://www.clearcanvas.ca/dnn/Products/CommunityEdition/tabid/278/Default.aspx

Revision as of 05:12, 10 January 2012

Home < Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools

TCGA ClearCanvas

Using AIM annotations with ClearCanvas, as explained by Justin Kirby.

Prerequisites:

  • Windows
  • Admin account (otherwise DICOM studies cannot be imported apparently)
  • Cannot query AIM data service while on Partners wireless, need cable connection

Steps to load images and annotations into ClearCanvas:

  1. Explorer -> DICOM, select folder with the studies of interest, click 'Import'
  2. In the tab with the selected study, click "AIM Data Service" and enter URL listed above
  3. Back to Explorer -> AIM Data Service, click "Search"
  4. Locate annotation that corresponds to the selected study, right mouse click, "Retrieve Selected Annotations"
  5. Back to the selected study tab, should be able to see annotations if select "Show all AIM annotations"
Supported markups in ClearCanvas
Supported markups visualized
<?xml version="1.0" encoding="UTF-8"?>
<TemplateContainer authors="oslo_mgh" name="RANO_NEW" 
     version="1.0" description="RANO WITHOUT MEASURABLE DISEASE ASSESSMENT" 
     creationDate="2011-11-18" xsi:schemaLocation="gme://caCORE.caCORE/3.2/edu.northwestern.radiology.AIMTemplate AIMTemplate_v1rv18.xsd" 
     xmlns="gme://caCORE.caCORE/3.2/edu.northwestern.radiology.AIMTemplate" 
     xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <Template name="RANO_NEW" version="1.0" authors="oslo_mgh" 
      description="Response Assessment in Neuro-Oncology" uid="123.987.32156.8454.1213156464.87987" 
      codeValue="RANO" codeMeaning="Response Assessment in Neuro-Oncology" codingSchemeDesignator="RANO" 
      creationDate="2011-11-18">
    <Component label="2-Non-Measurable Disease" minCardinality="1" maxCardinality="1" itemNumber="1" shouldDisplay="true" 
         explanatoryText="Evaluation of Non-Measurable Disease" authors="mcpinho77">
      <Inference annotatorConfidence="false"/>
      <AllowedTerm codeMeaning="Stable Disease" codeValue="RANO1" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Progressive Disease" codeValue="RANO4" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Baseline" codeValue="RANO0" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Not Present" codeValue="RANO5" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Non-evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
      </AllowedTerm>
    </Component>
    <Component label="3-FLAIR" minCardinality="1" maxCardinality="1" itemNumber="2" shouldDisplay="true" 
           explanatoryText="Tumor Evaluation on FLAIR" authors="mcpinho77">
      <Inference annotatorConfidence="false"/>
      <AllowedTerm codeMeaning="Stable Disease" codeValue="RANO1" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Progressive Disease" codeValue="RANO4" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Baseline" codeValue="RANO0" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Not Present" codeValue="RANO5" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Non-evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
      </AllowedTerm>
    </Component>
    <Component label="1-Measurable Disease" minCardinality="1" maxCardinality="1" itemNumber="0" 
          shouldDisplay="true" explanatoryText="Presence or Absence of Measurable Lesions" authors="mcpinho77">
      <Inference annotatorConfidence="false"/>
      <AllowedTerm codeMeaning="Yes" codeValue="RANO7" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="No" codeValue="RANO8" codingSchemeDesignator="RANO">
      </AllowedTerm>
      <AllowedTerm codeMeaning="Not Evaluable" codeValue="RANO6" codingSchemeDesignator="RANO">
      </AllowedTerm>
    </Component>
  </Template>
</TemplateContainer>
Template-based annotation in ClearCanvas for the annotation template defined on the left

AIM ePAD (OsiriX)

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