Minimum composition report for FranceGenRef
For a whole-genome panel described as representing French regional ancestral diversity, the first audit should quantify representation rather than rely on regional labels: unrelated sample count per recruitment region, coverage distribution, call-rate and missingness by region, relatedness exclusions, ancestry-inference method, and representation of recent admixture.
Allele-frequency uncertainty also needs to be visible. Report effective chromosome count and confidence intervals for each regional estimate, especially for rare variants, plus the divergence from larger external panels. What threshold—frequency error, confidence-interval width, or genetic distance—marks an ancestry-mismatched estimate as unsuitable?
