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ATGU Hail Workshop 2020

As part of a new hire workshop series at the Analytic and Translational Genetics Unit (ATGU), Massachusetts General Hospital, we decided to introduce Hail as a genomics analysis tool. This git repo contaisn the workshop materials for analysing common (GWAS) and rare variants (burden test only) using Hail.

Lead: Kumar Veerapen, PhD

TA: Arcturus Wang

Common Variant Analysis with Hail

Date: July 24th, 2020

Slide deck: Module4_CommonVariantAnalysisHail_KumarVeerapen.pdf

Jupyter notebook: ATGUworkshop_CVanalysis.ipynb

Rare Variant Analysis with Hail

Date: August 12th, 2020

Slide deck: Module9_RareVariantAnalysisHail_KumarVeerapen.pdf

Jupyter notebook: ATGUworkshop_RVanalysis.ipynb

  bonus activity: ATGUworkshop_Population_Unmasking.ipynb by Arcturus Wang

The resources folder contains the files needed to run the Jupyter notebooks.

The Dockerfile used to set up the Hail workshop container is found here.

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