Nextstrain

  • Evolution biology
  • Genomics
  • Software tool
Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. We provide a continually-updated view of publicly available data alongside powerful analytic and visualization tools for use by the community. Our goal is to aid epidemiological understanding and improve outbreak response.

This resource supports COVID-19 / SARS-CoV-2 research.

You might also be interested in

      • Genes & Genomes
      • Evolution & Phylogeny
      • Software tool

    REALPHY

    Inference of phylogenetic trees from genome data
      • Genes & Genomes
      • Evolution biology
      • Software tool

    BEAST2

    Bayesian evolutionary analysis by sampling trees
      • Genomics
      • Evolution & Phylogeny
      • Software tool

    Nextclade

    Clade assignment, mutation calling & QC for virus sequences
      • Genes & Genomes
      • , Genomics
      • , Transcriptomics
      • Evolution & Phylogeny
      • Systems Biology
      • Database
      • Software tool

    SwissRegulon Portal

    Tools and data for regulatory genomics
      • Genes & Genomes
      • Proteins & Proteomes
      • Structural Biology
      • Database

    ViralZone

    Fact sheets about viruses linked to sequence databases
      • Proteins & Proteomes
      • Database

    VenomZone

    Portal to venom protein UniProtKB entries
      • Metabolomics
      • Software tool

    MSight

    Mass Spectrometry Imager
      • Proteins & Proteomes
      • Software tool

    MELANIE

    2-D PAGE analysis
      • Systems Biology
      • Database

    SwissBioPics

    Subcellular location visualization
      • Proteins & Proteomes
      • Software tool

    pROC

    Visualize, smooth and compare ROC curves
      • Transcriptomics
      • Software tool

    ASAP

    Web-based, cooperative portal for single-cell data analyses
      • Text mining & Machine learning
      • Database
      • Software tool

    SIBiLS

    Personalized information retrieval from the literature
      • Genomics
      • Population genetics
      • Software tool

    V-pipe

    Viral genomics pipeline
      • Evolution & Phylogeny
      • Software tool

    raxmlGUI

    raxmlGUI 2.0 is a graphical user interface to RAxML
      • Proteins & Proteomes
      • Structural Biology
      • , Structural analysis
      • Software tool

    SWISS-MODEL Workspace

    Fully automated protein structure homology-modeling server
      • Proteins & Proteomes
      • Database
      • Software tool

    HAMAP

    UniProtKB family classification and annotation
      • Genomics
      • Population genetics
      • Software tool

    V-pipe SARS-CoV-2

    V-pipe pipeline for SARS-CoV-2 sequencing data
      • Genomics
      • Software tool

    ShoRAH

    Analysis of NGS data
      • Structural analysis
      • Software tool

    OpenStructure

    Molecular modelling and visualisation environment
      • Metagenomics
      • Software tool

    LEMMI

    Continuous benchmarking of methods for metagenomics
      • Medicinal chemistry
      • , Structural analysis
      • Software tool

    SwissParam

    Topology and parameters for small molecules
      • Proteins & Proteomes
      • Structural Biology
      • Database
      • Software tool

    CAMEO

    Weekly automated benchmarking of protein structure modelling
      • Genomics
      • , Transcriptomics
      • Systems Biology
      • Software tool

    ISMARA

    Webservice for gene expression and epigenetic data analysis
      • Genes & Genomes
      • Systems Biology
      • Software tool

    CREMA

    Cis-Regulatory Element Motif Activities
      • Genomics
      • , Transcriptomics
      • Systems Biology
      • Software tool

    CRUNCH

    Automated pipeline for ChIP-seq data analysis
      • Genomics
      • Systems Biology
      • Software tool

    Phylogibbs

    Regulatory sites in a collection of DNA sequences
      • Transcriptomics
      • Systems Biology
      • Software tool

    DWT-online

    Dinucleotide Weight Tensor toolbox and visualisation service
      • Glycomics
      • Database

    SugarBind

    Pathogen Sugar-Binding Database
      • Text mining & Machine learning
      • Software tool

    COVTriage

    Rank the COVID-19 literature according to COVoc ontology
      • Genes & Genomes
      • Evolution biology
      • Software tool

    GenSpectrum

    Real-time pathogen genomic sequence analysis
      • Evolution & Phylogeny
      • Database

    OrthoDB

    Ortholog evolutionary and functional annotations
      • Proteins & Proteomes
      • Glycomics
      • Database
      • Software tool

    GlyConnect

    Integrated data platform to study glycosylation
      • Genomics
      • , Transcriptomics
      • Evolution biology
      • Software tool

    BUSCO

    From QC to gene prediction and phylogenomics
      • Evolution & Phylogeny
      • Software tool

    OrthoLoger

    Accurate and scalable inference of groups of orthologs
      • Genomics
      • Evolution biology
      • Software tool

    CT-CBN

    Estimate conjunctive Bayesian networks