Elevate lineage XDV.1 as clade 24D and lineage KP.3.1.1 as clade 23E (#…

…1149) * Elevate lineage XDV.1 as clade 24D This commit elevates lineage XDV.1 as clade 24D * Elevate lineage KP.3.1.1 as clade 24E This commit elevates lineage KP.3.1.1 as clade 24E * Use earlier dates in clade_emergence_data to avoid false positives * Update defaults/clade_emergence_dates.tsv --------- Co-authored-by: Cornelius Roemer <[email protected]>
nextstrain · Sep 20, 2024 · 41e2e8f · 41e2e8f
1 parent e425767
commit 41e2e8f
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diff --git a/defaults/clade_display_names.yml b/defaults/clade_display_names.yml
@@ -41,3 +41,5 @@
 24A: 24A (JN.1)
 24B: 24B (JN.1.11.1)
 24C: 24C (KP.3)
+24D: 24D (XDV.1)
+24E: 24E (KP.3.1.1)
diff --git a/defaults/clade_emergence_dates.tsv b/defaults/clade_emergence_dates.tsv
@@ -43,3 +43,5 @@ Nextstrain_clade	first_sequence
 24A	2023-07-01
 24B	2023-11-01
 24C	2023-12-01
+24D	2024-01-01
+24E	2023-12-01
diff --git a/defaults/clade_hierarchy.tsv b/defaults/clade_hierarchy.tsv
@@ -41,3 +41,5 @@ clade	parent	WHO
 24A	23I	Omicron
 24B	24A	Omicron
 24C	24B	Omicron
+24D	21L	Omicron
+24E	24C	Omicron
diff --git a/defaults/clades.tsv b/defaults/clades.tsv
@@ -233,3 +233,14 @@ clade	gene	site	alt
 
 24C	clade	24B
 24C	nuc	23039	G
+
+24D	clade	21L
+24D	nuc	1170	T
+24D	nuc	11572	T
+24D	nuc	12473	T
+24D	nuc	15939	C
+
+24E	clade	24C
+24E	nuc	13121	T
+24E	nuc	15372	T
+24E	nuc	19722	G
diff --git a/defaults/color_ordering.tsv b/defaults/color_ordering.tsv
@@ -34041,6 +34041,8 @@ clade_membership	23I (BA.2.86)
 clade_membership	24A (JN.1)
 clade_membership	24B (JN.1.11.1)
 clade_membership	24C (KP.3)
+clade_membership	24D (XDV.1)
+clade_membership	24E (KP.3.1.1)
 
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