V-pipe

  • Population genetics
  • Genomics
  • Software tool
V-pipe is the bioinformatics pipeline that integrates various open-source software packages for assessing viral genetic diversity from next-generation sequencing (NGS) data derived from intra-host virus populations.

💡 V-pipe enables reliable and comparable viral pathogen genomics and epidemiological studies and facilitates clinical diagnostics of viruses.

You might also be interested in

      • 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
      • Evolution & Phylogeny
      • Software tool

    Nextclade

    Clade assignment, mutation calling & QC for virus sequences
      • 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
      • Genes & Genomes
      • Evolution & Phylogeny
      • Software tool

    REALPHY

    Inference of phylogenetic trees from genome data
      • Genomics
      • Population genetics
      • Software tool

    V-pipe SARS-CoV-2

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

    Nextstrain

    Impact of pathogen genome data on science and public health
      • 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
      • Genes & Genomes
      • Proteins & Proteomes
      • Structural Biology
      • Database

    ViralZone

    Fact sheets about viruses linked to sequence databases
      • 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

    BEAST2

    Bayesian evolutionary analysis by sampling trees
      • 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

    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
      • Genes & Genomes
      • , Genomics
      • , Metagenomics
      • Software tool

    mVIRs

    Prediction tool for inducible, bacteria-infecting viruses
      • Genomics
      • Evolution biology
      • Software tool

    CT-CBN

    Estimate conjunctive Bayesian networks