Using hail via Basilisk
Home Page: https://vjcitn.github.io/BiocHail
License: GNU General Public License v3.0
This is a multi-step overview of Hail for genetic association studies
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:
We have arranged a serialization of genotypes on chromosome 17 for 3202 1000 genomes samples.
Still to come.
Still to come.
Still to come.
A1 - work through tutorial
A2 - Fresh dataset
A3 - working with UKBB Summary statistics in GCP
- https://pan.ukbb.broadinstitute.org/docs/hail-format/index.html
A4 - Representing linkage disequilibrium
- https://pan-dev.ukbb.broadinstitute.org/docs/ld/index.html
B1 - Simulate variant collections using Balding-Nichols
B2 - Simulate variant collections using Pritchard-Stephens-Donnelly
C1 - Connect with phenotype data in FHIR
the heritability estimates in the browsable page have too many digits, see example(multipop_df)
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