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@bacpop

Bacterial population genetics

Pathogen Informatics and Modelling @ EMBL-EBI

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  1. PopPUNK PopPUNK Public

    PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)

    Python 115 24

  2. PopPIPE PopPIPE Public

    Population analysis PIPEline 🛠🧬

    Python 28 7

  3. sketchlib.rust sketchlib.rust Public

    Fast sequence distance estimates

    Rust 35 7

  4. ggCaller ggCaller Public

    Bifrost graph gene caller.

    C++ 102 6

  5. ska.rust ska.rust Public

    Split k-mer analysis – version 2

    Rust 110 8

  6. sparrowhawk sparrowhawk Public

    In-browser tools for bacterial genome analysis 🦅

    Vue 12 1

Repositories

Showing 10 of 57 repositories
  • sketchlib.rust Public

    Fast sequence distance estimates

    bacpop/sketchlib.rust's past year of commit activity
    Rust 35 Apache-2.0 7 17 1 Updated Nov 2, 2026
  • TOMBOMBADIL Public

    Rapid dN/dS calculation from codon alignments

    bacpop/TOMBOMBADIL's past year of commit activity
    Python 1 Apache-2.0 0 7 0 Updated Nov 2, 2026
  • pan-no-rec Public

    Rust bindings to find outlying pairwise gene distances in panaroo output

    bacpop/pan-no-rec's past year of commit activity
    Rust 0 0 1 1 Updated Oct 30, 2026
  • bacpop-website Public

    Code for group website

    bacpop/bacpop-website's past year of commit activity
    HTML 1 Apache-2.0 10 0 0 Updated Oct 27, 2026
  • sparrowhawk Public

    In-browser tools for bacterial genome analysis 🦅

    bacpop/sparrowhawk's past year of commit activity
    Vue 12 Apache-2.0 1 3 0 Updated Oct 21, 2026
  • sparrowhawk-asm Public

    Short-read assembler for bacterial genomics based on a de Bruijn graph written in Rust 🦅

    bacpop/sparrowhawk-asm's past year of commit activity
    Rust 16 Apache-2.0 2 4 0 Updated Oct 20, 2026
  • ska.rust Public

    Split k-mer analysis – version 2

    bacpop/ska.rust's past year of commit activity
    Rust 110 Apache-2.0 8 14 0 Updated Oct 20, 2026
  • sparrowhawk-amr Public

    AMR detection, WebAssembly ready, and AMRFinderPlus DB-compatible, on Rust

    bacpop/sparrowhawk-amr's past year of commit activity
    Rust 0 0 0 0 Updated Oct 15, 2026
  • mandrake.rust Public

    rust port of the mandrake (stochastic cluster embedding) algorithm

    bacpop/mandrake.rust's past year of commit activity
    Rust 3 Apache-2.0 0 0 0 Updated Oct 15, 2026
  • ALLCAPS Public

    Developing AI tools to analyse pneumococcal capsular biosynthetic loci, the primary target of Pneumococcal Conjugate Vaccines (PCVs).

    bacpop/ALLCAPS's past year of commit activity
    Python 2 MIT 0 1 0 Updated Oct 14, 2026
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