PanTools
4.3.3

Getting Started

  • DIY Pangenomics
  • Install
  • Technical setup validation
  • Differences between pangenome and panproteome
  • Workflows for pangenomics
  • Genome and sequence selection
  • Querying the pangenome

Tutorial PanTools

  • Tutorial 1 - Pangenome construction
  • Tutorial 2 - Pangenome analysis
  • Tutorial 3 - Phylogeny
  • Tutorial 4 - Visualization (PanVA)
  • Tutorial 5 - Neo4j browser

Pangenome Construction

  • Build a pangenome or panproteome
  • Annotate the pangenome graph
  • Grouping proteins
  • Synteny

Pangenome Analysis

  • BLAST
  • Classification
  • Explore the pangenome
  • Gene retention
  • GO enrichment
  • Metrics
  • Multiple Sequence Alignments
  • Phylogeny
  • Read mapping
  • Sequence visualization
  • Support functions
  • Synonymous and non-synonymous substitutions

Developer guide

  • Installation
  • Release steps
  • Database structure
PanTools
  • Search

© Copyright 2016, the PanTools team, Bioinformatics Group, Wageningen University & Research.

Built with Sphinx using a theme provided by Read the Docs.