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PlantandFoodResearch / MCHap

Polyploid micro-haplotype assembly using Markov chain Monte Carlo simulation.
MIT License
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Consider replacing `ADMF` with `AF` in find-snvs output #183

Open timothymillar opened 3 months ago

timothymillar commented 3 months ago

From the spec AF is

Allele frequency for each ALT allele in the same order as listed (estimated from primary data, not called genotypes)

So, it should be ok to calculate this as the mean of means as we are for ADMF and then drop the reference allele.