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@DReichLab David Reich Lab

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    Repositories list

    13 repositories

    • adaptive-pulldown

      Public
      Generate pseudo-haploid genotype data from low coverage ancient DNA reads
      C
      •0•0•0•0•Updated Sep 14, 2026Sep 14, 2026

    • waldo

      Public
      Python
      •0•3•147•0•Updated Sep 3, 2026Sep 3, 2026

    • ADNA-Tools

      Public
      This project is a collection of tools for bioinformatic processing of ancient DNA data at the Harvard Medical School Reich Lab.
      Java
      •
      Other
      •5•30•1•0•Updated Aug 21, 2026Aug 21, 2026

    • EIG

      Public
      Eigen tools by Nick Patterson and Alkes Price lab
      C
      •
      Other
      •61•207•58•3•Updated Jul 20, 2026Jul 20, 2026

    • AdmixTools

      Public
      Tools test whether admixture occurred and more
      C
      •76•236•62•0•Updated Jul 13, 2026Jul 13, 2026

    • contamMix

      Public
      Contamination estimation from mitochondrial ancient DNA
      C++
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Jul 8, 2025Jul 8, 2025

    • cTools

      Public
      Tools for accessing SGDP lite data
      C
      •6•8•0•1•Updated May 13, 2024May 13, 2024

    • MutationRateCode

      Public
      by Mark Lipson
      MATLAB
      •0•4•0•0•Updated Feb 7, 2022Feb 7, 2022

    • refinedate01

      Public
      C
      •1•0•0•0•Updated Apr 14, 2021Apr 14, 2021

    • adna-workflow

      Public
      Workflow for processing Illumina sequencing runs for ancient human DNA
      Python
      •
      Other
      •7•28•9•0•Updated Oct 29, 2020Oct 29, 2020

    • adna

      Public
      Processing WGS aDNA data using the ReichLab protocol
      C
      •3•13•2•1•Updated Mar 8, 2019Mar 8, 2019

    • PMDtools

      Public
      Compute postmortem damage patterns and decontaminate ancient genomes
      Python
      •
      GNU General Public License v3.0
      •9•0•0•0•Updated Mar 7, 2018Mar 7, 2018

    • XP-CLR

      Public
      XP-CLR (Chen et al. 2010) uses allele frequency differentiation at linked loci to detect selective sweeps.
      0•0•1•0•Updated Mar 16, 2015Mar 16, 2015
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