-
From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1666
GISAID reads this mutation as T21994C+del21998_22000, resulting in S:H146del instead of the S:Y144del for normal JN.1*s.
H…
-
There seems to be a large KP.3.1.1+S:S31F branch, while KP.3.1.1 shall have S:31del.
That branch is driven by Denmark seqs which do not handle S:S31del well. When Querying C12616T, A13121T, C2165…
-
It seems that there is a new convergent mutation of S:R190S. It usually couples with S:S31del.
Cov-spectrum shows its growth is negative with S:S31S, but large growth advantage with S:S31-. It see…
-
From branch 110 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
Like LF.8, this is another lineage messed up by inaccurate proposals of DailyCovidCases.
As it clearly emer…
-
- [ ] Obtain datasets for SARS-CoV-2, HIV-1 and the human genome
- [ ] Align sequence databases - MAFFFT?
- [ ] Theta - Watterson's, Pi, lamarc, BEAST
- [ ] Analyze results - significance between s…
-
### Feature Request
We want to switch over from nextclade 2 to nextclade v3.
### Solution
1) re-factor the nextclade json parser script to accomodate the new json format.
2) update the wdl to a…
-
From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1568
KP.2.2+A28468G(Orf9b:N62S)
GISAID query: A28468G,T21737C,A25359G
No. of seqs: 151(Canada 6 UK 6 Finland 5 France 65 Frenc…
-
From branch 115 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
JN.1+C23039G, T22928C, C21627A(S:T22N, F456L, Q493E)
Or JN.1.16+C23039G,C21627A(S:T22N,Q493E)
Now usher…
-
Hi NCBI Datasets team,
Today I've tried a couple geolocations with the `--geo-location` flag and have run into the `invalid zip archive` error every time.
My attempt with state level "WA"
`…
-
As I was experimenting with the repository, I stumbled upon some interesting behaviour which I thought might be useful to document.
I was running the model as described in the README (with a minor …
tskir updated
8 months ago