Comments (5)
Kindly correct the ncbi_serotype
section for this genome in https://data.nextstrain.org/files/workflows/dengue/metadata_all.tsv.zst
from dengue.
Thanks @Rohit-Satyam! I've PR'd a fix (#55) and the metadata should also reflect the fix now:
wget https://data.nextstrain.org/files/workflows/dengue/metadata_all.tsv.zst
zstd -d metadata_all.tsv.zst
grep "MT597439" metadata_all.tsv
from dengue.
Just a heads-up that some of the metadata columns just changed #41 (comment) and #51
ncbi_serotype
->serotype_ncbi
nextclade_subtype
->genotype_nextclade
from dengue.
Just a heads-up that some of the metadata columns just changed #41 (comment) and #51
ncbi_serotype
->serotype_ncbi
nextclade_subtype
->genotype_nextclade
But this is yet to be updated in the metadata right? Coz I still see ncbi_serotype
and nextclade_subtype
from dengue.
Correct, it'll be updated within the next 24 hours, when the next ingest-to-phylogenetic
github action runs.
It's set to run once a day (~10am Pacific Time), so should start running in ~40 mins
from dengue.
Related Issues (19)
- Add E gene builds HOT 5
- Split by dengue serotype (denv1-denv4) HOT 1
- Add workflow for producing the Nextclade dengue dataset HOT 2
- Harmonize with pathogen repo guide HOT 1
- Modernize `ncbi-field-map` in config
- Bug: Update dropped strains file to list accession instead of strain HOT 5
- ENH: Generalize taxon id to serotype map definitions to a configuration file
- Removal of genome containing plasmid sequence HOT 16
- Establish some deduplication guidelines within the phylogenetic workflow HOT 1
- Switch DENV2 genotypes to numeric to be consistent with DENV1, 3, and 4 HOT 2
- Add manual serotype annotations along with justifications to "annotations.tsv" HOT 1
- Rename "subtype" to "genotype" HOT 5
- The `phylogenetic` github action cannot build from staged `ingest` data during dev-branch testing
- Update the links of FASTA and metadata in the README HOT 1
- Set root reference in phylogenetic builds
- ENH: nextclade extensions to display multiple nomenclatures
- Fine tune the "Dengue virus DENVx genotypes" dataset HOT 1
- Improve serotype assignment in Dengue virus DENVx genotypes datasets
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from dengue.