Merge pull request #158 from griffithlab/mixed-variant-origin

acoffman · web-flow · commit bed81a1e3d1d · 2025-03-27T13:51:12.000-05:00
Add "Mixed" to Variant Origin docs
diff --git a/docs/generated/civic.docs-aliases.rst b/docs/generated/civic.docs-aliases.rst
@@ -83,6 +83,10 @@
    :class: 'cvc-icon'
 
 
+.. |attribute-mixed| image:: /images/icons/attribute/mixed-outline.svg
+   :class: 'cvc-icon'
+
+
 .. |attribute-na| image:: /images/icons/attribute/na-outline.svg
    :class: 'cvc-icon'
 
diff --git a/docs/images/icons/attribute/mixed-outline.svg b/docs/images/icons/attribute/mixed-outline.svg
@@ -0,0 +1,5 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<svg id="Layer_2" xmlns="http://www.w3.org/2000/svg" version="1.1" viewBox="0 0 1024 1024">
+  <!-- Generator: Adobe Illustrator 29.3.1, SVG Export Plug-In . SVG Version: 2.1.0 Build 151)  -->
+  <path d="M512,400.5c61.9,0,111.9,49.9,111.9,111.5s-50.1,111.5-111.9,111.5-111.9-49.9-111.9-111.5,50.1-111.5,111.9-111.5ZM400.1,239.5c0,61.6,50.1,111.5,111.9,111.5s111.9-49.9,111.9-111.5-50.1-111.5-111.9-111.5-111.9,49.9-111.9,111.5ZM400.1,784.5c0,61.6,50.1,111.5,111.9,111.5s111.9-49.9,111.9-111.5-50.1-111.5-111.9-111.5-111.9,49.9-111.9,111.5ZM784.5,400.1c-61.6,0-111.5,50.1-111.5,111.9s49.9,111.9,111.5,111.9,111.5-50.1,111.5-111.9-49.9-111.9-111.5-111.9ZM239.5,400.1c-61.6,0-111.5,50.1-111.5,111.9s49.9,111.9,111.5,111.9,111.5-50.1,111.5-111.9-49.9-111.9-111.5-111.9Z" fill="#666"/>
+</svg>
diff --git a/docs/model/assertions/shared_fields.rst b/docs/model/assertions/shared_fields.rst
@@ -20,7 +20,7 @@ Assertions share several fields with evidence, which for the most part can be un
      - :ref:`Molecular Profile Field <evidence-molecular-profile>`
      - 
    * - Origin
-     - :ref:`Gene Field <evidence-gene>`
+     - :ref:`Origin Field <evidence-origin>`
      -
    * - Disease
      - :ref:`Disease Field <evidence-disease>`
diff --git a/docs/model/evidence/origin.rst b/docs/model/evidence/origin.rst
@@ -42,6 +42,9 @@ Population frequencies should be based on current population databases (e.g., gn
    * - Combined
      - |attribute-combined|
      - Variants in the corresponding Complex Molecular Profile have heterogeneous origins.
+   * - Mixed
+     - |attribute-mixed|
+     - The population of patient variants described in the Evidence is a mixture of Somatic and Germline.
    * - Unknown
      - |attribute-unknown|
      - The variant origin is uncertain based on the available evidence.

Original file line number	Diff line number	Diff line change
`@@ -20,7 +20,7 @@ Assertions share several fields with evidence, which for the most part can be un`
`20`	`20`	- :ref:`Molecular Profile Field <evidence-molecular-profile>`
`21`	`21`	`-`
`22`	`22`	`* - Origin`
`23`		- - :ref:`Gene Field <evidence-gene>`
	`23`	+ - :ref:`Origin Field <evidence-origin>`
`24`	`24`	`-`
`25`	`25`	`* - Disease`
`26`	`26`	- :ref:`Disease Field <evidence-disease>`