pangene ☆

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Description:
Construct pangenome gene graphs

Type: Formula | Tracked Since: Dec 28, 2025

Links: Homepage | formulae.brew.sh

Category: Developer tools

Tags: bioinformatics pangenomics genomics graph gene-clustering

Install: brew install pangene

About:
Pangene is a tool for constructing pangenome gene graphs from genome assemblies. It identifies and clusters homologous genes across multiple sequences to build a graph structure that represents genetic variation. This approach enables robust gene presence/absence analysis and the discovery of novel or missing genes in complex datasets.

Key Features:

Scalable graph-based pangenome construction
Efficient homologous gene clustering
Detection of gene presence/absence variation
Integration with FASTA and GFA formats

Use Cases:

Building pangenome graphs for bacterial or viral genomes
Identifying accessory and core genes across strains
Improving gene annotation by comparing multiple assemblies

Alternatives:

PanTools – General-purpose pangenome analysis suite with graph capabilities
Roary – Focuses on bacterial pangenome clustering using gene families

Version History

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