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# AF and MLEAF calculation

Member Posts: 101

Hi all,

Could someone explain how the values for the fields AF and MLEAF are calculated in the vcf output?

Tagged:

Geraldine Van der Auwera, PhD

• Member Posts: 101

Thanks. It answers to some extent.

How is the AF calculated? Is it the ratio of the alternate allele to the total alleles (alt/ref+alt) ? And in case of multisample calling it reports a single value for AF. How is to possible to know the AF for individual sample?

For AF you should look at the VCF specification. MLEAF is a variation of AF, it is defined in the header of the VCF and computed from the EXACT model (see exact model math for details).

Geraldine Van der Auwera, PhD