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Since we don't really use GISAID sequences at the moment, this snippet in `utils.py` when creating a TreeInfo object is not needed anymore, and shouldn't be required in the metadata.
```python
sel…
szhan updated
7 hours ago
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Dear colleagues,
I was wondering if you could share the details on how you did the bulk download of .fasta sequence data from GISAID / EpiCov?
That would be very helpful.
Many thanks,
best,
Sophi…
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## Context
Our automated workflows use short lived AWS credentials for sessions which are limited by the [max_session_duration](https://github.com/nextstrain/infra/blob/814a7e4cd635b40c12fb0c4e83b168…
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5 assemblies from GISAID QC'd through HIVE3.
Raja's idea: Hit submit -> pop-up saying "Do you want you download the metadata from GISAID?"
Jonathon has to do some research on f programmatic access …
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KP.1.1.1+C27143T+C23277T, G27626T(S:T572I, Orf7a:R78L)
GISAID query: C27143T, C23277T, G27626T
GISAID query for S:I100L branch: C23277T, G27626T, A21860T
First: EPI_ISL_19122349, 2024-4-12, USA…
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- Revisar esquema Gisaid (Maria Lara)
- relecov-tools map para gisaid
- relecov-tools upload-to-gisaid usando multisub https://github.com/maximilianh/multiSub
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Hi there,
Really excited to know this tool! Want to apply this pipeline to precess global contextual data from GISAID.
Question: How to prepare JSON dump from GISAID?
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JN.1.16.1+S:T572I(C23277T)
Given the extreme convergence I cannot find a query to describe exactly JN.1.16.1+S:T572I, and they most likely emerged separately.
There are currently 3 major branches…
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This request works fine:
[https://lapis.cov-spectrum.org/gisaid/v2/sample/alignedNucleotideSequences?accessKey={accessKey}&country=Switzerland&DateMonth=5&limit=3](https://lapis.cov-spectrum.org/gisa…
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Reilan was manually uploading assemblies from GISAID per my request. I gave her all of the same assemblies and information that ran correctly for me. This was a test. Her computations failed at 20% vi…