Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
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Dec 16, 2024 - Python
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sarscov2
Here are 16 public repositories matching this topic...
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
bioinformatics snakemake virus genomics ngs sequencing conda bioinformatics-pipeline hiv sars-cov-2 sarscov2 biohackeu20 biohackcovid20 biohackeu21 biohackeu22
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Dec 4, 2024 - Jupyter Notebook
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
Covid19 UI | Local Data Tracker & Compare the number of deaths in Countries
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May 19, 2023 - Vue
Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England (peer-reviewed)
england paper insights transmission epidemiology bayesian-inference phylodynamics genetic-data sarscov2
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Mar 30, 2021 - HTML
SARS-CoV-2 data from Greece | GR | EN
greek greece coronavirus wuhan-pneumonia wuhan-coronavirus-outbreak wuhan-coronavirus coronavirus-info wuhan-virus coronavirus-analysis covid-19 covid-virus covid19 sars-cov-2 covid-2019 covid-data sarscov2 covid19-data
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Oct 31, 2020
Automatic RNA extraction protocol in OT-2 system (Opentrons)
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Jul 12, 2020 - Python
Covid-19 Sentimental Analysis of Twitter Dataset using Python and Tweepy Library
twitter numpy pandas python3 seaborn datascience dataset matplotlib tweepy twitter-sentiment-analysis pandemic matpl covid-19 covid covid19 sars-cov-2 sarscov2 covid19-data pandemic-analysis
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Nov 9, 2021 - Jupyter Notebook
Single Cell RNA Sequencing with Hybrid Pipeline
genes seurat covid-19 sars-cov-2 sarscov2 cell-ranger-count hybrid-genome-reference mitochondria-genes
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Oct 11, 2023 - R
COVID-19 Turkey API and Telegram Bot
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Sep 1, 2020 - Python
Documentation related to the project "Quantifying the Impact of Data Sharing on Outbreak Dynamics" (QIDSOD)
documentation data-science public-health data-integration epidemiology data-sharing datasharing outbreak outbreaks epidemiological-investigation covid-19 covid19 sars-cov-2 sarscov2 outbreak-severity outbreak-data-analysis next-pandemic outbreak-dynamics
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Jul 7, 2021
COVID-19 Turkey API
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Apr 27, 2021 - Python
Vacunacion COVID19 España
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May 7, 2021 - Jupyter Notebook
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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May 7, 2021 - Python
Analysis of the origin of SARS-COV 2, how could this pandemic have started?
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Jul 29, 2023 - HTML
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