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There may be a EG.5.1 sublineage with ORF1b:K2557R (A21137G; NSP16:K160R), ORF3a:P240L (C26111T) first detected in Guangdong, China.
As of 2023-07-17, Cov-Spectrum reports 52 good-quality (55 total…
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There may be a XBB.2.3.2 sublineage with ORF1a:T2977I (C9195T; NSP4:T214I) after G24193A and C26228A first detected in Singapore.
As of 2023-04-14, Cov-Spectrum reports 93 good-quality (135 total) …
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Dear,
We are using your tool on spiked samples and come across some discrepancies between what we expect and what we get. For example we used a bought RNA virus at 100% that should be B.1.1.7 (this…
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**Description**
Recombinant between: BA.2.75* and BQ.1*
Earliest sequence: 2022/11/20 (Japan-Fukushima)
Most recent sequence: 2022/11/23 (Japan-Fukushima, Australia-Sydney)
Countries circulating:…
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GJ.1 sublineage with ORF1b:V1110I (NSP13:V187I, G16795A), C1549T, and C7819G first detected in South Korea and detected in at least 15 different countries.
This issue is promoted from https://githu…
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Thank you for developing this useful tool for dealing with GISAID data. It seems, by default `export_fasta` generates fasta file with sequence header `|||`. Is it possible to customize the header form…
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There may be a XBB.2.3.8 sublineage with ORF1a:I2786V (A8621G; NSP4:I23V), ORF3a:I35T (T25496C), ORF7a:T14I (C27434T), S:T259I (C22338T), and synonymous nucleotide mutation C8950T first detected in Ne…
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In fig 1 we don't explain what `G7A`, `A100G`, etc stand for. Do we need to say this anywhere? See https://github.com/jeromekelleher/sc2ts-paper/issues/156#issuecomment-1576145293 for minor discussion…
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Thanks for the nice scraper. Was just wondering if you would mind putting a copy of the data in csv in your repository? I'm just asking in the context of an analysis of worldwide excess mortality I am…
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I was digging a bit in international sequences labelled as travel related with Philippines when i was hit by this tree:
![Schermata 2023-05-21 alle 00 19 42](https://github.com/cov-lineages/pango-d…