PanTools
4.3.4
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
Index
Index