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Allele count (AC)

Definition
AI-generated

Allele count (AC) in VCF is the number of alternate alleles observed at a variant in the genotypes present—cohort-wide for multi-sample files.

Topics
Sequencing Data Analysis
Related
Allele number (AN) Cumulative minor allele count (cMAC) Minor Allele Count (MAC)

Why it matters in GWAS

AC with allele number (AN) defines sample allele frequency for filtering rare variants and for MAC-based masks in burden tests.

Example usage

"Variants with AC < 5 in the internal panel were excluded from SKAT."

Allele number (AN) Cumulative minor allele count (cMAC) Minor Allele Count (MAC)
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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