Alternatives and similar repositories for covid-19-genomes

Users that are interested in covid-19-genomes are comparing it to the libraries listed below

• GenSpectrum / cov-spectrum-website
  A web platform to detect and analyze variants of SARS-CoV-2
  ☆60Updated this week
• CDCgov / SARS-CoV-2_Genomic_Surveillance
  ☆27Updated 5 months ago
• Mike-Honey / sars-cov-2-genomes
  SARS-CoV-2 genome data analysis
  ☆10Updated 2 weeks ago
• tomwenseleers / LineageExplorer
  Estimate growth rate advantage of SARS-CoV2 variants of concern based on international genomic surveillance data and multinomial spline f…
  ☆25Updated 2 years ago
• neherlab / SARS-CoV-2_variant-reports
  Informal summaries of notable SARS-CoV-2 lineages
  ☆110Updated 3 months ago
• lenaschimmel / sc2rf
  SARS-Cov-2 Recombinant Finder for fasta sequences
  ☆50Updated 3 years ago
• ukhsa-collaboration / variant_definitions
  ☆74Updated last year
• 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…
  ☆37Updated 3 weeks ago
• MurrellGroup / lineages
  Results from a model of global SARS-CoV-2 lineage competition
  ☆39Updated 3 months ago
• reconhub / outbreaker2
  Disease outbreak reconstruction from epidemiological and genetic data
  ☆34Updated this week
• cov-lineages / pangolin
  Software package for assigning SARS-CoV-2 genome sequences to global lineages.
  ☆443Updated last month
• hodcroftlab / covariants
  Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
  ☆321Updated this week
• outbreak-info / R-outbreak-info
  R package to access the genomics and epidemiology data and Research Library metadata compiled and standardized on outbreak.info.
  ☆21Updated 2 years ago
• Emergent-Epidemics / H5N1_US2024_timeline
  Data associated with the timeline of events during the 2024 H5N1 outbreak in the United States
  ☆27Updated last year
• cov-lineages / pangoLEARN
  Store of the trained model for pangolin to access.
  ☆55Updated 3 years ago
• cevo-public / Quantification-of-the-spread-of-a-SARS-CoV-2-variant
  ☆10Updated 2 years ago
• andersen-lab / HCoV-19-Genomics
  SARS-CoV-2 genomics
  ☆16Updated 6 months ago
• KarstensLab / microshades
  This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions f…
  ☆69Updated last year
• CDCgov / MicrobeTrace
  The Visualization Multitool for Molecular Epidemiology and Bioinformatics
  ☆95Updated this week
• globaldothealth / monkeypox
  Mpox 2022 repository
  ☆174Updated last year
• roblanf / phypapers
  How to set up a literature bot on Bluesky
  ☆84Updated last year
• theosanderson / taxonium
  A tool for exploring large trees in the browser
  ☆119Updated last week
• msberends / AMR
  Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial propertie…
  ☆103Updated this week
• ChrisHIV / teaching
  ☆19Updated last month
• lukejharmon / pcm
  A textbook for phylogenetic comparative methods.
  ☆43Updated 6 years ago
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆36Updated this week
• mikeblazanin / gcplyr
  gcplyr is an R package that facilitates wrangling and analysis of microbial growth curve data
  ☆37Updated 4 months ago
• acorg / Racmacs
  Racmacs R package for performing antigenic cartography
  ☆24Updated last year
• blab / evofr
  Tools for evolutionary forecasting
  ☆14Updated 3 months ago
• stephaniehicks / jhustatcomputing2022
  Course website for Johns Hopkins BSPH Statistical Computing (Biostatistics 140.776) in Fall 2022
  ☆17Updated 3 years ago