Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

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

Merged
merged 2 commits into from
Oct 4, 2024
Merged

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

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
5c838b1
Elevate lineage XEC as clade 24F
trvrb Sep 25, 2024
811906b
Add 24G (KP.2.3)
corneliusroemer Oct 3, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 2 additions & 0 deletions defaults/clade_display_names.yml
View file
Open in desktop
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
View file
Open in desktop
Original file line number Diff line number Diff line change
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
View file
Open in desktop
Original file line number Diff line number Diff line change
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
View file
Open in desktop
Original file line number Diff line number Diff line change
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
View file
Open in desktop
Original file line number Diff line number Diff line change
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

Expand Down
4 changes: 0 additions & 4 deletions defaults/emerging_lineages.tsv
View file
Open in desktop
Original file line number Diff line number Diff line change
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
Expand Down
Loading