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    85 repositories

    • MemPanG26

      Public
      Computational Pangenomics in Memphis
      HTML
      •
      MIT License
      •4•1•0•0•Updated May 9, 2026May 9, 2026

    • povu

      Public
      A toolkit for exploring regions of variation in pangenomes
      C++
      •
      MIT License
      •3•14•3•2•Updated May 8, 2026May 8, 2026

    • embo-pangenomics-2026

      Public
      EMBO Practical Pangenomics Course 2026
      0•0•0•0•Updated May 8, 2026May 8, 2026

    • gfalook

      Public
      GFA visualization tool - Rust reimplementation of odgi viz
      Rust
      •
      MIT License
      •2•11•1•0•Updated May 2, 2026May 2, 2026

    • odgi

      Public
      Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs
      C++
      •
      MIT License
      •48•243•58•5•Updated May 1, 2026May 1, 2026

    • impg

      Public
      implicit pangenome graph
      Rust
      •
      MIT License
      •13•101•0•4•Updated Apr 24, 2026Apr 24, 2026

    • HPRCv2

      Public
      pangenome alignment, implicit/explicit graph, and variants for human pangenome project release 2
      R
      •
      MIT License
      •1•21•0•1•Updated Apr 23, 2026Apr 23, 2026

    • sweepga

      Public
      plane sweep filtering genome alignments
      Rust
      •
      MIT License
      •1•24•1•2•Updated Apr 18, 2026Apr 18, 2026

    • gfasort

      Public
      Rust library and CLI for sorting bidirected pangenome graphs using configurable pipelines (path-guided SGD, grooming, topological sort)
      Rust
      •
      MIT License
      •0•1•0•0•Updated Apr 15, 2026Apr 15, 2026

    • syng

      Public
      syncmer graphs, and perhaps other sorts of sequence graphs
      C
      •
      MIT License
      •5•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • seqwish

      Public
      alignment to variation graph inducer
      C++
      •
      MIT License
      •21•159•32•5•Updated Apr 11, 2026Apr 11, 2026

    • impop

      Public
      Python
      •1•6•1•0•Updated Apr 9, 2026Apr 9, 2026

    • impg-paper

      Public
      impg paper
      TeX
      •0•0•0•0•Updated Apr 7, 2026Apr 7, 2026

    • rs-gfa-utils

      Public
      Rust
      •1•0•0•0•Updated Apr 2, 2026Apr 2, 2026

    • pggb

      Public
      the pangenome graph builder
      Shell
      •
      MIT License
      •49•493•60•0•Updated Mar 31, 2026Mar 31, 2026

    • smoothxg

      Public
      linearize and simplify variation graphs using blocked partial order alignment
      C++
      •
      Other
      •9•62•7•2•Updated Mar 31, 2026Mar 31, 2026

    • maffer

      Public
      extract MSAs from genome variation graphs
      C++
      •
      Other
      •2•34•4•0•Updated Mar 24, 2026Mar 24, 2026

    • fastga-rs

      Public
      fastga rust library
      Rust
      •
      MIT License
      •1•2•1•1•Updated Mar 18, 2026Mar 18, 2026

    • alnviz

      Public
      Fast, interactive alignment viewer for pangenome analysis
      C
      •
      Other
      •0•4•0•0•Updated Mar 14, 2026Mar 14, 2026

    • wfmash-rs

      Public
      Rust bindings for wfmash whole-genome aligner
      Rust
      •0•1•0•0•Updated Mar 11, 2026Mar 11, 2026

    • allwave

      Public
      simple interface for all-way alignment with biWFA
      Rust
      •
      MIT License
      •0•2•0•10•Updated Feb 9, 2026Feb 9, 2026

    • gafpack

      Public
      convert variation graph alignments to coverage maps over nodes
      Rust
      •
      MIT License
      •2•26•0•0•Updated Jan 21, 2026Jan 21, 2026

    • onecode-rs

      Public
      Rust bindings for ONEcode - a data representation format for genomic data
      C
      •
      MIT License
      •1•0•0•1•Updated Jan 14, 2026Jan 14, 2026

    • iitree-rs

      Public
      Implicit Augmented Interval Tree (IAITree/cgranges) in Rust with memory-mapped disk storage
      Rust
      •0•1•0•0•Updated Nov 4, 2025Nov 4, 2025

    • genotypify

      Public
      Genotyping lots of samples with big pangenomes
      Python
      •
      MIT License
      •0•11•0•0•Updated Oct 30, 2025Oct 30, 2025

    • seqrush

      Public
      online variation graph induction
      Rust
      •
      MIT License
      •1•11•1•0•Updated Oct 21, 2025Oct 21, 2025

    • alnstat-rs

      Public
      Rust
      •0•1•0•0•Updated Oct 8, 2025Oct 8, 2025

    • HackPRC25

      Public
      Biohackathon following the HPRC25 conference
      HTML
      •0•1•0•0•Updated Oct 8, 2025Oct 8, 2025

    • seqwish-paper

      Public
      Unbiased pangenome graphs
      TeX
      •
      MIT License
      •0•3•0•0•Updated Oct 5, 2025Oct 5, 2025

    • lifetree

      Public
      hard mode all genomes alignment
      Shell
      •3•7•0•0•Updated Sep 25, 2025Sep 25, 2025
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