Symbol | Description | Default values |
---|---|---|
πι | Genotype prior probabilities | πvar = 0.0005 |
πhet = 0.001 | ||
πref = 1 – (πhet + πvar) = 0.9985 | ||
Ï€somatic = 0.0001 | ||
Ï€LOH = 0.0001 | ||
αι, βι | Alpha and beta hyperparameters for the beta distributions of variant allele proportions | αref = 1, βref = 700 |
αvar = 700, βvar = 1 | ||
αnonhom = 1, βnonhom = 1 | ||
αsomatic = 1, βsomatic = 1 | ||
αAI = 1, βAI = 1 |