Merge pull request #443 from nextstrain/flu-update-2026-03

Flu update 2026 03

Author: rneher

data/nextstrain/flu/b/ha/KX058884/CHANGELOG.md

@@ -1,6 +1,8 @@
 ## Unreleased
 
-- Remove empty `nucMutLabelMap` and legacy `nucMutLabelMapReverse`
+ - Remove empty `nucMutLabelMap` and legacy `nucMutLabelMapReverse`
+ - addition of subclade [C.3.3](https://github.com/influenza-clade-nomenclature/seasonal_B-Vic_HA/blob/main/subclades/C.3.3.yml)
+ - inclusion of older sequences that precede the current subclade system
 
 ## 2026-01-14T08:53:00Z
 

data/nextstrain/flu/b/ha/KX058884/pathogen.json

@@ -25,9 +25,9 @@
   "qc": {
     "privateMutations": {
       "enabled": true,
-      "typical": 5,
-      "cutoff": 15,
-      "weightLabeledSubstitutions": 2,
+      "typical": 10,
+      "cutoff": 30,
+      "weightLabeledSubstitutions": 1,
       "weightReversionSubstitutions": 1,
       "weightUnlabeledSubstitutions": 1
     },
@@ -117,4 +117,4 @@
     "reference accession": "KX058884",
     "reference name": "B/Brisbane/60/2008-egg"
   }
-}
+}

data/nextstrain/flu/b/ha/KX058884/sequences.fasta

@@ -1,6 +1,7 @@
 ## Unreleased
 
-- Remove empty `nucMutLabelMap` and legacy `nucMutLabelMapReverse`
+ - Remove empty `nucMutLabelMap` and legacy `nucMutLabelMapReverse`
+ - inclusion of older sequences that precede the current subclade system
 
 ## 2026-01-14T08:53:00Z
 Initial release

data/nextstrain/flu/b/ha/KX058884/tree.json

@@ -25,9 +25,9 @@
   "qc": {
     "privateMutations": {
       "enabled": true,
-      "typical": 5,
-      "cutoff": 15,
-      "weightLabeledSubstitutions": 2,
+      "typical": 10,
+      "cutoff": 30,
+      "weightLabeledSubstitutions": 1,
       "weightReversionSubstitutions": 1,
       "weightUnlabeledSubstitutions": 1
     },
@@ -400,4 +400,4 @@
     "reference accession": "CY073894",
     "reference name": "B/Brisbane/60/2008-egg"
   }
-}
+}

data/nextstrain/flu/b/na/CY073894/CHANGELOG.md

@@ -34,6 +34,11 @@ The leading letter is an alias of a previous name.
 Details of the nomenclature system can be found at [github.com/influenza-clade-nomenclature/seasonal_A-H1N1pdm_HA/](https://github.com/influenza-clade-nomenclature/seasonal_A-H1N1pdm_HA/).
 
 
+The nomenclature system is described in the following paper
+
+[**Nomenclature for Tracking of Genetic Variation of Seasonal Influenza Viruses**](https://dx.doi.org/10.1111/irv.70230)
+
+_Neher et al. Influenza and Other Respiratory Viruses, vol 20(2), 2026_
 
 ## What is Nextclade dataset
 

data/nextstrain/flu/b/na/CY073894/pathogen.json

@@ -115,4 +115,4 @@
     "reference accession": "CY121680",
     "reference name": "A/California/7/2009-egg"
   }
-}
+}