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Follow up to https://github.com/nextstrain/ncov-ingest/pull/451.
We are using the Snakemake `--stats` flag to get workflow stats for [GISAID](https://github.com/nextstrain/ncov-ingest/blob/f5f238b…
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Dear all
I just realized that the Cumulative Prevalence for different lineages in your superb web resource seems to be calculate by #GISAID_sample_with_lineage_X/#GISAID_sample. Generally this seem…
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KP.3.1.1+A25121C(S:N1187H)
GISAID query: A25121C, C12616T, A13121T
No. of seqs: 10(Spain 2 UK 2 France 2 USA 2(from Netherlands) Canada 1 Sweden 1)
First: EPI_ISL_19267885,Spain, 2024-6-10
Lat…
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From branch 6 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1771
LB.1.7+G22132T(S:R190S)
GISAID query: G22132T, G22111T, C4784T, -22096,-16376,-11109, G11727A
No. of seqs: 17…
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KP.3.2>**S:S680F(C23601T)**
GISAID search:A2611C,C22858T,C23601T
![image](https://github.com/sars-cov-2-variants/lineage-proposals/assets/125779492/5bdb2426-f7df-4384-b417-2ea7bc20c006)
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KP.3.3+G23285T(S:A575S)
GISAID query: G28884C, C28291A, G23285T
No. of seqs: 36(USA 2 Australia 1 Canada 1 Japan 32)
First: EPI_ISL_19059365,Japan, 2024-4-1
Latest: EPI_ISL_19300195, Japan, 20…
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From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1777
KP.1.1.5+C8619T(Orf1a:A2785V)+T18547C,C13335T(Orf1a:A4357V)+C23601A(S:S680Y)
GISAID query: T18547C,C13335T,C23601A
No. …
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From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1757
KP.2.6+C22883T(S:L441F)
GISAID query: T21752A,C22883T,G17334T
No .of seqs: 50(Australia 1 Canada 3 UK 6 France 1 German…
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transferred from: https://github.com/sars-cov-2-variants/lineage-proposals/issues/1653
![image](https://github.com/user-attachments/assets/d2a20d2c-531c-4dc8-bd3b-9df2b31961bc)
tree: https://nextstr…
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./SARSCOV2/gisaid/gisaid_cov2020_sequences_aligned_filter1_noDups_april20.fas