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popstrat.png 100644 47 kb
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README.md
# BiocHail This is a multi-step overview of Hail for genetic association studies ## Tutorial overview The basic layout, following the [Hail GWAS tutorial](https://hail.is/docs/0.2/tutorials/01-genome-wide-association-study.html): ![topics](https://github.com/vjcitn/BiocHail/raw/main/toc1.png) We'll see how to use a very small excerpt from the 1000 genomes study to produce ![litman](https://github.com/vjcitn/BiocHail/raw/main/litman.png) Along the way, we illustrate and adjust for population stratification: ![popstrat](https://github.com/vjcitn/BiocHail/raw/main/popstrat.png) ## 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.