vjcitn/BiocHail

Using hail via Basilisk

BiocHail

This is a multi-step overview of Hail for genetic association studies

Tutorial overview

The basic layout, following the Hail GWAS tutorial:

We'll see how to use a very small excerpt from the 1000 genomes study to produce

Along the way, we illustrate and adjust for population stratification:

Larger data problem -- 1000 genomes data with T2T reference

We have arranged a serialization of genotypes on chromosome 17 for 3202 1000 genomes samples.

Relevant LD resources ... in which cloud?

Still to come.

Simulating multipopulation genotype surveys

Still to come.

Binding phenotypes from FHIR to Hail

Still to come.