Data on COVID-19 (coronavirus) cases, deaths, hospitalizations, tests • All countries • Updated daily by Our World in Data
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Updated
Jun 15, 2024 - Python
Data on COVID-19 (coronavirus) cases, deaths, hospitalizations, tests • All countries • Updated daily by Our World in Data
VirusMVP is an interactive heatmap-centric app that integrates viral genomic mutations, lineage information and curated functional impact to study the spread and evolution of viruses in Canada and globally.
vSNP -- validate SNPs
Nextstrain build for novel coronavirus SARS-CoV-2
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
SARS-CoV-2 variant growth rates and frequency forecasts
GitHub Action of Covid19 Cuba Data project implemented in Python
Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting.
Fitness estimates of SARS-CoV-2 variants
set of helper tools for the assembly of the different elements in the RELECOV platform (Spanish Network for genomic surveillance of SARS-Cov-2) as data download, processing, validation and upload to public databases, as well as analysis runs and database storage.
The Public Health Environmental Surveillance Open Data Model (PHES-ODM, or ODM). A data model, dictionary and support tools for environmental surveillance.
Keep your code safe from COVID-19 by staying 6 line breaks apart.
A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 genomes (Variants of Concern and Variants of Interest). Workflow is developed in collaboration with COVID-MVP (https://github.com/cidgoh/COVID-MVP) which can be used to visualize the mutation profiles and functional annotations.
Pipeline for analyses of multiple pathogens, like SARS-CoV-2 with positivity rate analyses
Repository to propose and discuss lineages
Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
A Nextflow workflow for generating the mutation profiles of SARS-CoV-2 genomes from Variants of Concern and Variants of Interest. COVID-MVP (https://github.com/cidgoh/COVID-MVP) can be used to visualize the mutations and functional annotations.
bvas: bayesian viral allele selection
A simple GUI that allows users to check whether mutations from a SARS-CoV-2 genome best fit a mutational distribution of genomes derived from global, chronic, or deer infections.
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