Repositories list

• tskit-site

  Public
  tskit website

  HTML

  •

  Other

  •66 forks•00 stars•2323 issues•00 pull requests•Updated Sep 5, 2026Sep 5, 2026

• tskit

  Public
  Population-scale Ancestral Recombination Graph (ARG) library

  pythonsciencebioinformatics+ 3

  pythonsciencebioinformaticsgenomicsphylogeneticstree-sequences

  Python

  •

  MIT License

  •8484 forks•190190 stars•8686 issues•1111 pull requests•Updated Sep 4, 2026Sep 4, 2026

• tstrait

  Public
  Quantitative trait simulation for ARGs

  argstskittree-sequences

  argstskittree-sequences

  Python

  •

  MIT License

  •77 forks•99 stars•22 issues•11 pull request•Updated Sep 2, 2026Sep 2, 2026

• .github

  Public
  Defaults for github shared across tskit-dev repositories

  33 forks•00 stars•22 issues•00 pull requests•Updated Sep 1, 2026Sep 1, 2026

• msprime

  Public
  Simulate ARGs and genomic sequence data using population genetic models

  pythongenomicsgenetics+ 5

  pythongenomicsgeneticssimulationtreescoalescenttskitmsprime

  Python

  •

  GNU General Public License v3.0

  •9292 forks•218218 stars•7070 issues•66 pull requests•Updated Sep 1, 2026Sep 1, 2026

• tskit-rust

  Public
  Rust bindings for the tskit library

  rustrust-bindingstskit+ 1

  rustrust-bindingstskittree-sequences

  C

  •

  MIT License

  •55 forks•1818 stars•55 issues•66 pull requests•Updated Sep 1, 2026Sep 1, 2026

• pyslim

  Public
  Tools for dealing with tree sequences coming to and from SLiM.

  Python

  •

  MIT License

  •2424 forks•2828 stars•3636 issues•22 pull requests•Updated Sep 1, 2026Sep 1, 2026

• sc2ts

  Public
  ARG inference and analysis utilities for pandemic-scale SARS-CoV-2 data

  argstskitsars-cov-2

  argstskitsars-cov-2

  Python

  •

  GNU General Public License v3.0

  •44 forks•66 stars•2525 issues•22 pull requests•Updated Aug 20, 2026Aug 20, 2026

• kastore

  Public
  The key-array store for read-only numerical data.

  C

  •

  MIT License

  •99 forks•22 stars•22 issues•00 pull requests•Updated Aug 14, 2026Aug 14, 2026

• tskit-paper

  Public
  Python

  •4848 forks•33 stars•00 issues•00 pull requests•Updated Jul 15, 2026Jul 15, 2026

• tszip

  Public
  Gzip-like compression for tskit tree sequences

  compressiontree-sequencetskit

  compressiontree-sequencetskit

  Python

  •

  MIT License

  •77 forks•55 stars•33 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• tsbrowse

  Public
  Inspect tskit format ARGs

  Python

  •

  MIT License

  •1010 forks•33 stars•2323 issues•22 pull requests•Updated Jun 30, 2026Jun 30, 2026

• tsdate

  Public
  Infer the age of ancestral nodes in a tree sequence.

  Python

  •

  MIT License

  •1212 forks•2727 stars•4646 issues•55 pull requests•Updated Jun 30, 2026Jun 30, 2026

• tsinfer

  Public
  Infer a tree sequence from genetic variation data.

  Python

  •

  GNU General Public License v3.0

  •1818 forks•6565 stars•3232 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• tscompare

  Public
  Utilities for comparing tree sequences

  Python

  •

  MIT License

  •44 forks•22 stars•22 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• tutorials

  Public
  A set of tutorials for msprime and tskit.

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •1919 forks•2121 stars•2424 issues•22 pull requests•Updated Jun 19, 2026Jun 19, 2026

• tskit-explore

  Public
  JupyterLite deployment for tskit notebooks

  Jupyter Notebook

  •22 forks•00 stars•00 issues•00 pull requests•Updated Jun 5, 2026Jun 5, 2026

• tsdate-gel-paper

  Public
  Publicly shareable code and plot data for the "Tracing the evolutionary histories of ultra-rare variants using variational dating of large ancestral recombinati…

  HTML

  •11 fork•00 stars•11 issue•11 pull request•Updated Jan 30, 2026Jan 30, 2026

• administrative

  Public
  project management documents and discussions for tskit development

  Makefile

  •

  GNU General Public License v3.0

  •33 forks•11 star•55 issues•00 pull requests•Updated Sep 28, 2025Sep 28, 2025

• genetic-relatedness-paper

  Public
  Manuscript and files for the Genetic relatedness paper

  TeX

  •00 forks•00 stars•22 issues•00 pull requests•Updated Apr 15, 2025Apr 15, 2025

• tsconvert

  Public
  Utilities for converting tree sequences to and from other formats

  Python

  •

  MIT License

  •66 forks•77 stars•2121 issues•11 pull request•Updated Mar 19, 2025Mar 19, 2025

• what-is-an-arg-paper

  Public archive
  Manuscript and code for the "What is an ARG?" paper

  TeX

  •88 forks•33 stars•00 issues•00 pull requests•Updated Jun 26, 2024Jun 26, 2024

• tskit-build-examples

  Public
  Examples of how to build projects using tskit.

  C

  •33 forks•11 star•00 issues•11 pull request•Updated Dec 20, 2023Dec 20, 2023

• containers

  Public
  Containerised environments for tskit and related projects

  Shell

  •

  MIT License

  •22 forks•00 stars•00 issues•00 pull requests•Updated Aug 4, 2023Aug 4, 2023

• tskit-book-theme

  Public
  A book theme for documentation of tskit projects

  Jupyter Notebook

  •

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

  •212212 forks•00 stars•00 issues•00 pull requests•Updated Jul 13, 2023Jul 13, 2023

• msprime-1.0-paper

  Public archive
  Publication describing msprime 1.0

  TeX

  •2121 forks•55 stars•00 issues•00 pull requests•Updated Aug 24, 2022Aug 24, 2022

• build-deploy-docs

  Public
  Github composite run steps action for building and deploying docs

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 16, 2021Jan 16, 2021

• tskit-docs

  Public archive
  HTML

  •11 fork•00 stars•00 issues•00 pull requests•Updated Nov 28, 2020Nov 28, 2020

• msprime-asv

  Public
  Airspeed velocity site for msprime

  11 fork•00 stars•00 issues•00 pull requests•Updated Nov 25, 2020Nov 25, 2020

• tsviz

  Public
  Visualisation tools for tree sequences

  Python

  •

  MIT License

  •44 forks•55 stars•88 issues•00 pull requests•Updated Sep 28, 2020Sep 28, 2020