PBI-Scope

  • Genomics
  • AI and machine learning
  • Software tool
PBI-Scope is a bioinformatics pipeline that makes phage genomic data from PhageScope and their hosts available in an efficient, structured format for training neural networks and AI models for phage-host interaction prediction.

You might also be interested in

      • Metagenomics
      • Software tool

    mVIRs

    Prediction tool for inducible, bacteria-infecting viruses
      • Proteins & Proteomes
      • Glycomics
      • Database

    UniLectin

    Structural and functional classification of lectins
      • Proteins & Proteomes
      • Structural analysis
      • Software tool

    SwissTargetPrediction

    Target prediction for bioactive small molecules
      • Proteins & Proteomes
      • Glycomics
      • Database

    SugarBind

    Pathogen Sugar-Binding Database
      • Proteins & Proteomes
      • Systems Biology
      • Database
      • Software tool

    STRING

    Protein-protein interaction networks and enrichment analysis
      • Proteins & Proteomes
      • Systems Biology
      • Database

    TCS

    Predict interaction specificity in bacterial signalling
      • Medicinal chemistry
      • Database
      • Software tool

    SwissDrugDesign

    Widening access to computer-aided drug design
      • Proteins & Proteomes
      • Glycomics
      • Database

    GAG-DB

    3D structures of glycosaminoglycans
      • Proteins & Proteomes
      • Database

    PROSITE

    Protein family and domain database
      • Proteins & Proteomes
      • Software tool

    ScanProsite

    Protein sequences against PROSITE
      • Proteins & Proteomes
      • Structural analysis
      • Database

    Click2Drug

    Directory of computational drug design tools
      • Proteins & Proteomes
      • Structural analysis
      • Database

    SwissBioIsostere

    Database of molecular replacements for ligand design
      • Proteins & Proteomes
      • Software tool

    PRATT

    Conserved patterns in a set of protein sequences
      • Proteins & Proteomes
      • Glycomics
      • Database

    MatrixDB

    Extracellular proteins and polysaccharides interactions
      • Transcriptomics
      • Proteins & Proteomes
      • Systems Biology
      • Software tool

    NOODAI

    Multi-omics data analysis and integration
      • Proteins & Proteomes
      • AI and machine learning
      • Database

    MHC Motif Atlas

    MHC Motif Atlas
      • Drug design
      • Software tool

    BindCraft

    Design of functional protein binders
      • Transcriptomics
      • Database
      • Software tool

    ASAP

    Web-based, cooperative portal for single-cell data analyses
      • Genomics
      • Evolution & Phylogeny
      • Software tool

    Nextclade

    Clade assignment and quality control for viral genomes
      • Genomics
      • Population genetics
      • Software tool

    V-pipe

    Viral genomic variant detection pipeline
      • Evolution & Phylogeny
      • Software tool

    raxmlGUI

    raxmlGUI 2.0 is a graphical user interface to RAxML
      • Proteins & Proteomes
      • 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

    Real-time tracking of pathogen evolution
      • 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
      • 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
      • 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
      • 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
      • Proteins & Proteomes
      • Software tool

    MSight

    Mass Spectrometry Imager
      • Proteins & Proteomes
      • Software tool

    MELANIE

    2-D PAGE analysis
      • Proteins & Proteomes
      • Software tool

    HAMAP-Scan

    Scanning of protein sequences against HAMAP families
      • Proteins & Proteomes
      • Software tool

    prolfqua

    R package for protein differential expression analysis
      • Transcriptomics
      • Database

    Glittr

    Git repositories with bioinformatics training material
      • Transcriptomics
      • Software tool

    QuasR

    Quantification and analysis of Short Reads
      • Transcriptomics
      • Systems Biology
      • Software tool

    Bonsai

    Analysis of single cell RNA-seq data
      • Metagenomics
      • Software tool

    MAGFlow/BIgMAG

    Metagenome metrics and taxonomical annotation visualization
      • Genomics
      • Software tool

    Loculus

    Infrastructure for managing pathogen genomic data
      • Proteins & Proteomes
      • Evolution & Phylogeny
      • Database
      • Software tool

    Orthology Benchmarking

    Quest for Orthologs benchmarking service
      • Evolution & Phylogeny
      • Structural Biology
      • Software tool

    Foldtree

    Phylogenetic tree from predicted protein structures
      • Genomics
      • Evolution & Phylogeny
      • Software tool

    RECOPHY

    Recombination pattern analysis based on phylogeny
      • Genes & Genomes
      • Proteins & Proteomes
      • Structural Biology
      • Database

    ViralZone

    Knowledgebase on virus biology and viral proteins
      • Genes & Genomes
      • Evolution biology
      • Software tool

    BEAST2

    Statistical framework for pathogen genome evolution analysis
      • Genomics
      • 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
      • 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
      • Database

    Pathoplexus

    Human viral pathogen genomic data sharing platform
      • Proteins & Proteomes
      • AI and machine learning
      • Database
      • Software tool

    MixTCRpred

    Predictor of TCR-epitope interactions
      • Metagenomics
      • Database

    BeeBiome

    Bee-associated microbes/viruses