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The Atkinson Lab at Baylor College of Medicine

Code created by the Atkinson lab at Baylor College of Medicine lives here. We work on population and statistical genomics across diverse populations.

15 followers
https://www.bcm.edu/research/faculty-labs/elizabeth-atkinson-lab
@egatkinson
elizabeth.atkinson@bcm.edu

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TractorTractorPublic
Scripts for implementing the Tractor pipeline
Jupyter Notebook 55 16
Tractor-tutorialTractor-tutorialPublic
A tutorial for running Tractor and Tractor-Mix on toy datasets, including step-by-step instructions for preparing data, estimating PCs and GRMs, and performing mixed-model association tests.
Jupyter Notebook 12 4

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Showing 10 of 12 repositories

TractorWorkflow Public
Nextflow pipeline for Tractor GWAS with customizable phasing, local ancestry inference (RFMix2, GNomix, FLARE), and regression modules.
Atkinson-Lab/TractorWorkflow's past year of commit activity
Nextflow 2MIT 3 0 2 Updated Jul 30, 2026
Tractor Public
Scripts for implementing the Tractor pipeline
Atkinson-Lab/Tractor's past year of commit activity
Jupyter Notebook 55MIT 16 8 3 Updated Jul 29, 2026
Tractor-Burden Public
Atkinson-Lab/Tractor-Burden's past year of commit activity
Python 0MIT 0 0 0 Updated Jul 16, 2026
Tractor-Burden-Simulations-Summary-Stats Public
Atkinson-Lab/Tractor-Burden-Simulations-Summary-Stats's past year of commit activity
0 0 0 0 Updated Jun 24, 2026
Tractor-PGS Public
Polygenic score model leveraging Tractor framework
Atkinson-Lab/Tractor-PGS's past year of commit activity
0 0 0 0 Updated Apr 17, 2026
PGS_Array_WGS Public
Scripts for PGS analyses in the paper
Atkinson-Lab/PGS_Array_WGS's past year of commit activity
Jupyter Notebook 2MIT 1 0 0 Updated Mar 3, 2026
Tractor-tutorial Public
A tutorial for running Tractor and Tractor-Mix on toy datasets, including step-by-step instructions for preparing data, estimating PCs and GRMs, and performing mixed-model association tests.
Atkinson-Lab/Tractor-tutorial's past year of commit activity
Jupyter Notebook 12 4 0 0 Updated Dec 22, 2025
Tractor-Mix Public
The source code for Tractor-Mix
Atkinson-Lab/Tractor-Mix's past year of commit activity
R 4MIT 2 1 0 Updated Dec 22, 2025
Nextflow_GWAS_pipeline Public Forked from chrisrob3312/Nextflow_GWAS_pipeline
a nextflow pipeline to allow optional selection of various GWAS tools using a population-stratified approach followed by MR-MEGA or MR-MEGA-env meta-analysis
Atkinson-Lab/Nextflow_GWAS_pipeline's past year of commit activity
Nextflow 0 1 0 0 Updated Dec 12, 2025
LAI-sims-accuracy Public
Code for determining local ancestry inference accuracy
Atkinson-Lab/LAI-sims-accuracy's past year of commit activity
Shell 1MIT 0 0 0 Updated Aug 5, 2025

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