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Elevate lineage XEC as clade 24F and KP.2.3 as clade 24G #1152

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Oct 4, 2024
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Elevate lineage XEC as clade 24F and KP.2.3 as clade 24G #1152

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5c838b1
Elevate lineage XEC as clade 24F
trvrb Sep 25, 2024
811906b
Add 24G (KP.2.3)
corneliusroemer Oct 3, 2024
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2 changes: 2 additions & 0 deletions defaults/clade_display_names.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -43,3 +43,5 @@
24C: 24C (KP.3)
24D: 24D (XDV.1)
24E: 24E (KP.3.1.1)
24F: 24F (XEC)
24G: 24G (KP.2.3)
4 changes: 3 additions & 1 deletion defaults/clade_emergence_dates.tsv
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Expand Up @@ -44,4 +44,6 @@ Nextstrain_clade first_sequence
24B 2023-11-01
24C 2023-12-01
24D 2024-01-01
24E 2023-12-01
24E 2023-12-01
24F 2024-05-01
24G 2024-01-01
2 changes: 2 additions & 0 deletions defaults/clade_hierarchy.tsv
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Expand Up @@ -43,3 +43,5 @@ clade parent WHO
24C 24B Omicron
24D 21L Omicron
24E 24C Omicron
24F 24A Omicron
24G 24B Omicron
13 changes: 13 additions & 0 deletions defaults/clades.tsv
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Expand Up @@ -244,3 +244,16 @@ clade gene site alt
24E nuc 13121 T
24E nuc 15372 T
24E nuc 19722 G

24F clade 24A
24F nuc 18657 T
24F nuc 19716 T
24F nuc 21627 A
24F nuc 21738 C
24F nuc 22928 C
24F nuc 23039 G
24F nuc 24872 T

24G clade 24B
24G nuc 22599 C
24G nuc 25593 T
3 changes: 2 additions & 1 deletion defaults/color_ordering.tsv
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Expand Up @@ -34043,6 +34043,8 @@ clade_membership 24B (JN.1.11.1)
clade_membership 24C (KP.3)
clade_membership 24D (XDV.1)
clade_membership 24E (KP.3.1.1)
clade_membership 24F (XEC)
clade_membership 24G (KP.2.3)

################

Expand All @@ -34064,7 +34066,6 @@ emerging_lienage GW.5
emerging_lineage JD.1
emerging_lineage XBB.1.41
emerging_lineage LB.1
emerging_lineage KP.2.3
emerging_lineage JN.1.50
emerging_lineage XDY

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4 changes: 0 additions & 4 deletions defaults/emerging_lineages.tsv
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Expand Up @@ -328,10 +328,6 @@ LB.1 nuc 22111 T
LB.1 nuc 22928 C
LB.1 nuc 22599 C

KP.2.3 clade 24B
KP.2.3 nuc 22599 C
KP.2.3 nuc 25563 T

JN.1.50 clade 24A
JN.1.50 nuc 9298 T
JN.1.50 nuc 22309 C
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