The HELIC study has been whole genome sequencing individuals from 2 Greek isolated populations at 1x depth. The genotype calling process crucially involves a VQSR step followed by imputation-based ref
Using the sarek pipeline default values. Aligned to HG38 using bwa, and dragmap. Variants are called using either haplotypecaller, strelka, deepvariant, or freebayes. Data input was Agilent 200M WES r
