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    26 repositories

    • tskit-site

      Public
      tskit website
      HTML
      •
      Other
      •8•0•28•0•Updated Nov 10, 2024Nov 10, 2024

    • tsdate

      Public
      Infer the age of ancestral nodes in a tree sequence.
      Python
      •
      MIT License
      •10•19•50•7•Updated Nov 9, 2024Nov 9, 2024

    • tsbrowse

      Public
      Utilities for evaluating inferred tree sequences
      Python
      •
      MIT License
      •8•3•28•8•Updated Nov 7, 2024Nov 7, 2024

    • tskit

      Public
      Population-scale genomics
      sciencebioinformaticsgenomicsphylogeneticstree-sequencespython
      Python
      •
      MIT License
      •73•155•282•14•Updated Nov 7, 2024Nov 7, 2024

    • tskit-rust

      Public
      Rust bindings for the tskit library
      rust-bindingstskittree-sequencesrust
      C
      •
      MIT License
      •3•15•12•13•Updated Nov 1, 2024Nov 1, 2024

    • tszip

      Public
      Gzip-like compression for tskit tree sequences
      compressiontree-sequencetskit
      Python
      •
      MIT License
      •7•4•5•0•Updated Oct 18, 2024Oct 18, 2024

    • msprime

      Public
      Simulate genealogical trees and genomic sequence data using population genetic models
      pythongenomicsgeneticssimulationtreescoalescenttskitmsprime
      Python
      •
      GNU General Public License v3.0
      •88•177•73•10•Updated Oct 8, 2024Oct 8, 2024

    • tstrait

      Public
      Quantitative trait simulation for ARGs
      argstskittree-sequences
      Python
      •
      MIT License
      •6•7•2•1•Updated Oct 3, 2024Oct 3, 2024

    • tutorials

      Public
      A set of tutorials for msprime and tskit.
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •15•18•26•3•Updated Sep 20, 2024Sep 20, 2024

    • tsinfer

      Public
      Infer a tree sequence from genetic variation data.
      C
      •
      GNU General Public License v3.0
      •13•56•120•5•Updated Sep 10, 2024Sep 10, 2024

    • pyslim

      Public
      Tools for dealing with tree sequences coming to and from SLiM.
      Python
      •
      MIT License
      •23•27•32•1•Updated Aug 4, 2024Aug 4, 2024

    • what-is-an-arg-paper

      Public
      Manuscript and code for the "What is an ARG?" paper
      TeX
      •8•2•0•0•Updated Jun 26, 2024Jun 26, 2024

    • kastore

      Public
      The key-array store for read-only numerical data.
      C
      •
      MIT License
      •7•2•5•0•Updated Jun 25, 2024Jun 25, 2024

    • tskit-build-examples

      Public
      Examples of how to build projects using tskit.
      C
      •3•1•0•1•Updated Dec 20, 2023Dec 20, 2023

    • containers

      Public
      Containerised environments for tskit and related projects
      Shell
      •
      MIT License
      •1•0•0•0•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
      •201•0•0•0•Updated Jul 13, 2023Jul 13, 2023

    • tsconvert

      Public
      Utilities for converting tree sequences to and from other formats
      Python
      •
      MIT License
      •6•7•20•1•Updated Apr 18, 2023Apr 18, 2023

    • administrative

      Public
      project management documents and discussions for tskit development
      Makefile
      •
      GNU General Public License v3.0
      •3•1•5•0•Updated Mar 2, 2023Mar 2, 2023

    • tskit-paper

      Public
      Python
      •4•2•10•2•Updated Oct 21, 2022Oct 21, 2022

    • msprime-1.0-paper

      Public archive
      Publication describing msprime 1.0
      TeX
      •20•4•0•0•Updated Aug 24, 2022Aug 24, 2022

    • build-deploy-docs

      Public
      Github composite run steps action for building and deploying docs
      MIT License
      •0•0•0•0•Updated Jan 16, 2021Jan 16, 2021

    • tskit-docs

      Public
      HTML
      •0•0•0•0•Updated Nov 28, 2020Nov 28, 2020

    • msprime-asv

      Public
      Airspeed velocity site for msprime
      0•0•0•0•Updated Nov 25, 2020Nov 25, 2020

    • .github

      Public
      Defaults for github shared across tskit-dev repositories
      0•0•1•0•Updated Sep 28, 2020Sep 28, 2020

    • tsviz

      Public
      Visualisation tools for tree sequences
      Python
      •
      MIT License
      •3•5•8•0•Updated Sep 28, 2020Sep 28, 2020

    • tscompare

      Public
      Utilities for comparing tree sequences
      MIT License
      •0•2•2•0•Updated Sep 28, 2020Sep 28, 2020