adjust rules to maximize correct assignment of designated sequences

cov-lineages · Jun 7, 2023 · 65101be · 65101be
1 parent a804602
commit 65101be
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Showing 8 changed files with 12 additions and 15 deletions.
diff --git a/constellations/definitions/cB.1.1.529.json b/constellations/definitions/cB.1.1.529.json
@@ -56,7 +56,7 @@
     "rules": {
       "default": {
         "min_alt": 22,
-        "max_ref": 2,
+        "max_ref": 3,
         "spike:D614G": "not ref"
       },
       "Probable": {

diff --git a/constellations/definitions/cBA.2.json b/constellations/definitions/cBA.2.json
@@ -54,11 +54,8 @@
     "note": "Unique mutations for sublineage",
     "rules": {
       "default": {
-        "min_alt": 27,
-        "max_ref": 3,
-        "spike:Q493":"alt",
-        "n:P151":"ref",
-        "nuc:G27788":"ref"
+        "min_alt": 23,
+        "max_ref": 4
       }
     }
 }
diff --git a/constellations/definitions/cBA.5.json b/constellations/definitions/cBA.5.json
@@ -52,8 +52,8 @@
     "note": "Unique mutations for sublineage",
     "rules": {
       "default": {
-        "min_alt": 27,
-        "max_ref": 5,
+        "min_alt": 25,
+        "max_ref": 4,
         "s:Q493":"ref",
         "nuc:C26858":"ref",
         "nuc:G27788":"ref",

diff --git a/constellations/definitions/cXBB-parent1.json b/constellations/definitions/cXBB-parent1.json
@@ -25,7 +25,7 @@
     "rules": {
       "default": {
         "min_alt": 2,
-        "max_ref": 0
+        "max_ref": 2
       }
     }
 }
diff --git a/constellations/definitions/cXBB-parent2.json b/constellations/definitions/cXBB-parent2.json
@@ -21,7 +21,7 @@
     "rules": {
       "default": {
         "min_alt": 0,
-        "max_ref": 0
+        "max_ref": 1
       }
     }
 }
diff --git a/constellations/definitions/cXBB.1.5.json b/constellations/definitions/cXBB.1.5.json
@@ -24,8 +24,8 @@
         "spike:F486P"
     ],
     "rules": {
-        "min_alt": 1,
-        "max_ref": 1,
+        "min_alt": 2,
+        "max_ref": 0,
         "spike:F486":"alt"
     }
 }
diff --git a/constellations/definitions/cXBB.1.json b/constellations/definitions/cXBB.1.json
@@ -24,7 +24,7 @@
         "orf8:G8*"
     ],
     "rules": {
-        "min_alt": 1,
-        "max_ref": 1
+        "min_alt": 2,
+        "max_ref": 0
     }
 }
diff --git a/constellations/definitions/cXE.json b/constellations/definitions/cXE.json
@@ -30,7 +30,7 @@
     "nuc:C14599T"
     ],
     "rules": {
-        "min_alt": 2,
+        "min_alt": 3,
         "max_ref": 0
     }
 }