Fig. 3. Analysis pipeline and data insertion.

All relevant data are first inserted into the chain, including genetic and clinical data, sequencing metadata and population stratification PCs. Variant data are passed through a QC script before insertion. Filtering. Sequencing metadata are queried and filtered to extract patients who can be analyzed together. Patient relatedness is also assessed, and only unrelated samples are included in the final cohort. Extraction. Relevant phenotype, genotype and covariate information for the cohort is retrieved. Analysis. The data are analyzed and results are returned to the user.