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    13 repositories

    • octopus

      Public
      Bayesian haplotype-based mutation calling
      bioinformaticsgenomicssomatic-variants
      bioinformaticsgenomicssomatic-variantshaplotypesvariantsvariant-callingsingle-cellphasingde-novo-mutation
      C++
      •
      MIT License
      •37•323•54•12•Updated Feb 13, 2026Feb 13, 2026

    • toplot

      Public
      Visualize latent variables obtained with latent Dirichlet methods (topic models)
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 10, 2025Dec 10, 2025

    • smcsmc

      Public
      Demographic inference from whole genomes
      C++
      •
      GNU General Public License v3.0
      •4•13•2•1•Updated Oct 18, 2022Oct 18, 2022

    • polyploid

      Public
      Benchmarking variant calling in polyploids
      Jupyter Notebook
      •
      MIT License
      •2•15•0•0•Updated Nov 26, 2021Nov 26, 2021

    • single-cell

      Public
      Benchmarking single-cell DNA variant calling
      Jupyter Notebook
      •
      MIT License
      •0•2•0•0•Updated Aug 10, 2021Aug 10, 2021

    • luntergroup.github.io

      Public
      0•0•0•0•Updated Jun 9, 2021Jun 9, 2021

    • octopus-paper

      Public
      Paper for octopus variant caller
      Jupyter Notebook
      •0•3•0•0•Updated May 7, 2020May 7, 2020

    • analysis

      Public
      Analysis of inference methods on standard population models
      Python
      •
      MIT License
      •14•0•0•0•Updated Aug 1, 2019Aug 1, 2019

    • stdpopsim

      Public
      A library of standard simulation models for msprime
      Python
      •
      MIT License
      •95•0•0•0•Updated Jul 31, 2019Jul 31, 2019

    • EquivariantNetworks

      Public
      Python
      •0•3•0•0•Updated Sep 20, 2018Sep 20, 2018

    • smcsmcScrm

      Public
      scrm jz_stable branch
      C++
      •
      GNU General Public License v3.0
      •7•0•0•0•Updated Jun 10, 2018Jun 10, 2018

    • bamsplit

      Public
      Split a BAM file by haplotype support
      bam-filesbioinformaticshaplotypes
      bam-filesbioinformaticshaplotypesvariants
      Python
      •
      MIT License
      •1•16•1•0•Updated Dec 13, 2017Dec 13, 2017

    • utilities

      Public
      Python
      •2•0•5•0•Updated Aug 4, 2016Aug 4, 2016
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