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* [x] `institute.ena_assembly_opted`
* [x] How to get process information in scope (`process.bioinformatics.pipeline.pipe`) for `ocarina-get-ena-assembly.py`
* [x] How to get `ENA-SAMPLE` and `ENA-R…
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I have downloaded the hyphy package and am running it locally using the command line with the command hyphy -i. I have tried running my alignment and tree with MEME, FEL with dS, and FEL without dS. E…
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We automatically upload this file on a daily basis for data analysis.
Manual download from GISAID it not a solution!
In a time of crisis, it is irresponsible to add barriers to data access!
P…
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seems normal people can't register to gisaid
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When incorporating new sequences from GISAID into nextflu, are only relatively new sequences downloaded or is everything in GISAID downloaded? `vdb_parse` currently parses the fasta before trying to u…
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I was just doing an update from GISAID and ran into an error when running:
```
python vdb/flu_update.py -db vdb -v flu --update_groupings
```
I get:
```
Traceback (most recent call last):
File "v…
trvrb updated
7 years ago
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A large fraction of the GISAID submissions don't include full subtype information. This is especially common for `B/Vic` and `B/Yam`. Because of this, asking for A/H3N2 in GISAID won't actually get al…
trvrb updated
8 years ago