Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
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Oct 10, 2024 - Python
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sarscov2
Here are 6 public repositories matching this topic...
Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input directory and merges everything into a single output directory. Auto-detects input file formats. Can submit the results to multiple repositories from the command line.
tsv
genbank
fasta
ncbi
meta-data
ena
sars-cov-2
sarscov2
gisaid-uploader
gisaid-format
gisaid-upload
gisaid-xls
ncbi-ftp
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May 1, 2022 - Python
Automatic RNA extraction protocol in OT-2 system (Opentrons)
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Jul 12, 2020 - Python
COVID-19 Turkey API and Telegram Bot
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Sep 1, 2020 - Python
COVID-19 Turkey API
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Apr 27, 2021 - Python
A simple tool to generate hierarchical clustering trees from nucleotide sequences. Supports a number of distance metrics and clustering algorithms. Includes a large testset of SARSCOV2 genomes.
distance
phylogenetic-trees
genome-analysis
kmer-composition
bioinfo
hierarchical-clustering-trees
sarscov2
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Updated
May 7, 2021 - Python
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