updating barcodes and metadata

andersen-lab · Sep 18, 2024 · f4efee0 · f4efee0
1 parent 2e1828a
commit f4efee0
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diff --git a/freyja/data/last_barcode_update.txt b/freyja/data/last_barcode_update.txt
@@ -1 +1 @@
-09_17_2024-01-50
+09_18_2024-01-49
diff --git a/freyja/data/lineage_mutations.json b/freyja/data/lineage_mutations.json
@@ -62822,6 +62822,78 @@
         "G28883C",
         "A29510C"
     ],
+    "BF.24": [
+        "C241T",
+        "T670G",
+        "C1627T",
+        "G2177T",
+        "C2790T",
+        "C3037T",
+        "G4184A",
+        "C4321T",
+        "T6979G",
+        "C9344T",
+        "A9424G",
+        "C9534T",
+        "C9967T",
+        "C10029T",
+        "C10198T",
+        "G10447A",
+        "C10449A",
+        "G12160A",
+        "C12880T",
+        "C14408T",
+        "C15714T",
+        "C17410T",
+        "A18163G",
+        "C18570T",
+        "C19955T",
+        "A20055G",
+        "C21618T",
+        "T22200G",
+        "G22578A",
+        "C22674T",
+        "T22679C",
+        "C22686T",
+        "A22688G",
+        "G22775A",
+        "A22786C",
+        "G22813T",
+        "T22882G",
+        "T22917G",
+        "G22992A",
+        "C22995A",
+        "A23013C",
+        "T23018G",
+        "A23055G",
+        "A23063T",
+        "T23075C",
+        "A23403G",
+        "C23525T",
+        "T23599G",
+        "C23604A",
+        "C23854A",
+        "G23948T",
+        "A24424T",
+        "T24469A",
+        "G24620T",
+        "C25000T",
+        "C25584T",
+        "C26060T",
+        "C26270T",
+        "G26529A",
+        "C26577G",
+        "G26709A",
+        "A27038G",
+        "C27807T",
+        "C27889T",
+        "A28271T",
+        "C28311T",
+        "G28881A",
+        "G28882A",
+        "G28883C",
+        "A29510C"
+    ],
     "BF.36": [
         "C241T",
         "T670G",
@@ -142179,78 +142251,6 @@
         "G28883C",
         "A29510C"
     ],
-    "BF.24": [
-        "C241T",
-        "T670G",
-        "C1627T",
-        "G2177T",
-        "C2790T",
-        "C3037T",
-        "G4184A",
-        "C4321T",
-        "T6979G",
-        "C9344T",
-        "A9424G",
-        "C9534T",
-        "C9967T",
-        "C10029T",
-        "C10198T",
-        "G10447A",
-        "C10449A",
-        "G12160A",
-        "C12880T",
-        "C14408T",
-        "C15714T",
-        "C17410T",
-        "A18163G",
-        "C18570T",
-        "C19955T",
-        "A20055G",
-        "C21618T",
-        "T22200G",
-        "G22578A",
-        "C22674T",
-        "T22679C",
-        "C22686T",
-        "A22688G",
-        "G22775A",
-        "A22786C",
-        "G22813T",
-        "T22882G",
-        "T22917G",
-        "G22992A",
-        "C22995A",
-        "A23013C",
-        "T23018G",
-        "A23055G",
-        "A23063T",
-        "T23075C",
-        "A23403G",
-        "C23525T",
-        "T23599G",
-        "C23604A",
-        "C23854A",
-        "G23948T",
-        "A24424T",
-        "T24469A",
-        "G24620T",
-        "C25000T",
-        "C25584T",
-        "C26060T",
-        "C26270T",
-        "G26529A",
-        "C26577G",
-        "G26709A",
-        "A27038G",
-        "C27807T",
-        "C27889T",
-        "A28271T",
-        "C28311T",
-        "G28881A",
-        "G28882A",
-        "G28883C",
-        "A29510C"
-    ],
     "JQ.1": [
         "C241T",
         "T670G",
@@ -260254,7 +260254,7 @@
         "A29510C",
         "A29558G"
     ],
-    "MC.9": [
+    "MC.2.1": [
         "C241T",
         "T670G",
         "C897A",
@@ -260288,7 +260288,6 @@
         "G15372T",
         "C15714T",
         "T15756A",
-        "G17122T",
         "G17334T",
         "C17410T",
         "A18163G",
@@ -260307,6 +260306,7 @@
         "A22034G",
         "T22200G",
         "C22208T",
+        "G22272A",
         "C22295A",
         "C22353A",
         "A22556G",
@@ -260350,6 +260350,7 @@
         "C23604G",
         "C23854A",
         "G23948T",
+        "G24095T",
         "C24378T",
         "A24424T",
         "T24469A",
@@ -260358,7 +260359,6 @@
         "C25000T",
         "C25207T",
         "C25584T",
-        "G25617T",
         "C26060T",
         "C26270T",
         "G26529C",
@@ -260382,17 +260382,19 @@
         "C28958A",
         "A29510C"
     ],
-    "MC.2.1": [
+    "MC.6": [
         "C241T",
         "T670G",
         "C897A",
+        "C2570T",
         "C2790T",
         "C3037T",
         "G3431T",
         "T3565C",
         "G4184A",
         "C4321T",
         "A6183G",
+        "G6536A",
         "C7113T",
         "A7842G",
         "C8293T",
@@ -260434,7 +260436,6 @@
         "A22034G",
         "T22200G",
         "C22208T",
-        "G22272A",
         "C22295A",
         "C22353A",
         "A22556G",
@@ -260478,7 +260479,6 @@
         "C23604G",
         "C23854A",
         "G23948T",
-        "G24095T",
         "C24378T",
         "A24424T",
         "T24469A",
@@ -260510,19 +260510,17 @@
         "C28958A",
         "A29510C"
     ],
-    "MC.6": [
+    "MC.9": [
         "C241T",
         "T670G",
         "C897A",
-        "C2570T",
         "C2790T",
         "C3037T",
         "G3431T",
         "T3565C",
         "G4184A",
         "C4321T",
         "A6183G",
-        "G6536A",
         "C7113T",
         "A7842G",
         "C8293T",
@@ -260546,6 +260544,7 @@
         "G15372T",
         "C15714T",
         "T15756A",
+        "G17122T",
         "G17334T",
         "C17410T",
         "A18163G",
@@ -260615,6 +260614,7 @@
         "C25000T",
         "C25207T",
         "C25584T",
+        "G25617T",
         "C26060T",
         "C26270T",
         "G26529C",
@@ -262946,7 +262946,7 @@
         "A29510C",
         "C29625T"
     ],
-    "MC.11.1": [
+    "MC.13.1": [
         "C241T",
         "T670G",
         "C897A",
@@ -262968,6 +262968,7 @@
         "C10198T",
         "G10447A",
         "C10449A",
+        "C10681T",
         "G11042T",
         "G11727A",
         "C12616T",
@@ -262982,8 +262983,8 @@
         "T15756A",
         "G17334T",
         "C17410T",
-        "C17430T",
         "A18163G",
+        "C18388T",
         "A18492G",
         "C18894T",
         "A19722G",
@@ -263000,7 +263001,7 @@
         "T22200G",
         "C22208T",
         "C22295A",
-        "C22329T",
+        "C22323T",
         "C22353A",
         "A22556G",
         "G22577C",
@@ -263014,7 +263015,6 @@
         "G22775A",
         "A22786C",
         "G22813T",
-        "C22858T",
         "T22882G",
         "G22895C",
         "T22896A",
@@ -263075,7 +263075,7 @@
         "C28958A",
         "A29510C"
     ],
-    "MC.13.1": [
+    "MC.11.1": [
         "C241T",
         "T670G",
         "C897A",
@@ -263097,7 +263097,6 @@
         "C10198T",
         "G10447A",
         "C10449A",
-        "C10681T",
         "G11042T",
         "G11727A",
         "C12616T",
@@ -263112,8 +263111,8 @@
         "T15756A",
         "G17334T",
         "C17410T",
+        "C17430T",
         "A18163G",
-        "C18388T",
         "A18492G",
         "C18894T",
         "A19722G",
@@ -263130,7 +263129,7 @@
         "T22200G",
         "C22208T",
         "C22295A",
-        "C22323T",
+        "C22329T",
         "C22353A",
         "A22556G",
         "G22577C",
@@ -263144,6 +263143,7 @@
         "G22775A",
         "A22786C",
         "G22813T",
+        "C22858T",
         "T22882G",
         "G22895C",
         "T22896A",

diff --git a/freyja/data/usher_barcodes.feather b/freyja/data/usher_barcodes.feather