Repositories list

• panacus

  Public
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs

  graphgfapangenomics+ 3

  graphgfapangenomicspangenomepangenome-graphpangenome-growth

  Rust

  •

  MIT License

  •1212 forks•137137 stars•2222 issues•00 pull requests•Updated Jul 20, 2026Jul 20, 2026

• codialab.github.io

  Public
  Group website of the CODIA lab

  SCSS

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• bubblotter

  Public
  Simple tool for plotting bubbles in a pangenome graph

  Python

  •

  MIT License

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• DMI_GEM_APBC2026

  Public
  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2026Jun 8, 2026

• sqz

  Public
  /ˈskuzi/

  gfapangenomicsbpe+ 1

  gfapangenomicsbpegrammar-compression

  Rust

  •

  MIT License

  •11 fork•1010 stars•00 issues•00 pull requests•Updated Jun 5, 2026Jun 5, 2026

• GFAffix

  Public
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.

  gfapangenomicshandlegraph

  gfapangenomicshandlegraph

  Rust

  •

  MIT License

  •55 forks•4040 stars•22 issues•00 pull requests•Updated May 4, 2026May 4, 2026

• HySim

  Public
  Simulation pipeline simulating short single cell (10x Chromium) and long bulk (PacBio) reads from the same data

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 10, 2025Nov 10, 2025

• ml_helpers

  Public
  Rust

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 4, 2025Nov 4, 2025

• scallop2

  Public
  C++

  •

  BSD 3-Clause "New" or "Revised" License

  •77 forks•00 stars•00 issues•00 pull requests•Updated Nov 4, 2025Nov 4, 2025

• hprc-qc

  Public
  Perl

  •

  Apache License 2.0

  •11 fork•00 stars•00 issues•00 pull requests•Updated Oct 2, 2025Oct 2, 2025

• trim-graph

  Public
  Simple tool to remove segments and links from GFA files that are not covered by paths

  Rust

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 5, 2025Sep 5, 2025

• pqa

  Public
  Pangenome Quality Assessment

  Nextflow

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 1, 2025Jul 1, 2025

• .github

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated May 26, 2025May 26, 2025

• spp-dcj

  Public
  Python

  •

  MIT License

  •00 forks•33 stars•00 issues•00 pull requests•Updated Mar 6, 2025Mar 6, 2025