GitHub topics: gisaid
CDCgov/seqsender
Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
Language: Python - Size: 261 MB - Last synced at: 12 days ago - Pushed at: 17 days ago - Stars: 35 - Forks: 14
nextstrain/ncov-ingest
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.
Language: Python - Size: 402 MB - Last synced at: 20 days ago - Pushed at: 20 days ago - Stars: 36 - Forks: 20
william-swl/gisflu
Access the GISAID Flu database using Python
Language: Python - Size: 2.04 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1
enviro-lab/gisaid-download
Assisted download of selected samples from GISAID
Language: Python - Size: 24.4 KB - Last synced at: 11 days ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0
rafalopespx/Variant_infections_rate
Repository with codes to the paper 'Combining genomic data and infection estimates to characterize the complex dynamics of SARS-CoV-2 Omicron variants in the United States'
Language: R - Size: 559 MB - Last synced at: 13 days ago - Pushed at: 7 months ago - Stars: 1 - Forks: 0
rafalopespx/covidtrackerct Fork of duckien242/covidtrackerct
ShinyApp repo for the CovidTracker, any details further than the codes here available please send an email to rafael.lopes at yale.edu
Language: R - Size: 103 MB - Last synced at: 12 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
3dgiordano/SARS-CoV-2-Variants
This project tries to give a glimpse of the different variants of SAR-CoV-2 in the world.
Language: Python - Size: 395 MB - Last synced at: 1 day ago - Pushed at: over 1 year ago - Stars: 7 - Forks: 2
HDRUK/covid-19
HDR UK - Resources for 🦠COVID-19 Research
Size: 625 KB - Last synced at: about 1 year ago - Pushed at: about 5 years ago - Stars: 41 - Forks: 9
DEIB-GECO/VariantHunter Fork of LucaCilibrasi/VariantHunter
VariantHunter is a tool for fast detection of emerging SARS-CoV-2 variants. It's an highly flexible and user friendly application for the systematic monitoring of the evolution of SARS-CoV-2 both at global and regional level.
Language: Vue - Size: 63.6 MB - Last synced at: 8 months ago - Pushed at: about 2 years ago - Stars: 5 - Forks: 3
tsy19900929/gisaid_fasta_downloader
a flexible tool to download ncov data
Language: Python - Size: 2.65 MB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 6 - Forks: 1
zelenkastiot/s-gene-mutations-SARS-CoV-2
Processing GISAID SARS-CoV-2 emerging variants data and generating a language model using Transformers. The model semantically captures masked glycoprotein amino acid mutations in emerging variants of the SARS-CoV2-virus and gives appropriate scores for each potential aa change.
Language: Jupyter Notebook - Size: 17.3 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 0
qianqli/SARS-Cov-2--GISAID
This repo summarises the data sources, web application, tools and reviews paper of SARS-Cov-2. Trace the study progress of SARS-Cov-2 based on GISAID data.
Size: 27.3 KB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0
animesh-workplace/GISAID_scrapper
This tool can be used to download the samples and metadata from GISAID provided you have an existing account with download privileges.
Language: Python - Size: 37.1 KB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0
