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Allele number (AN)

Definition
AI-generated

Allele number (AN) is the total number of alleles genotyped at a variant in the cohort (twice the count of diploid calls when fully called).

Topics
Sequencing Data Analysis
Related
Allele count (AC) Call rate

Why it matters in GWAS

AN pairs with AC to compute frequency; missing genotypes reduce AN and must be accounted for in rare-variant QC.

Example usage

"AN dropped at low-complexity sites where many genotypes were no-called."

Allele count (AC) Call rate
Related-term network

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Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Danecek P, et al. (2011). The variant call format and VCFtools. Bioinformatics.
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