Pangenome Python Packages

ppanggolin

Build a partitioned pangenome graph from microbial genomes

superpang

Non-redundant pangenome assemblies from multiple genomes or bins

panorama-sys

PANORAMA Project

pangbank-cli

Command-line tool for retrieving pangenomes using the PanGBank API.

pypangraph

A bioinformatic toolkit to align genome assemblies into pangenome graphs

panqc

A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses

strainflair

Strain-level abundances estimation in metagenomic samples using variation graphs

parmmosahn

Species-agnostic pipeline that builds a pangenome-reference metabolic model and rapidly derives consistent, gap-filled strain-specific genome-scale models from bacterial genomes.

panphlan

PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples