negll function

Negative Log Likelihood

Calculates negative log likelihood for beta binomial distribution.

negll(x, size, prob, rho)

Arguments

• x: Depth of alternative allele
• size: Total depth
• prob: Theoretical probability for heterozygous is 0.5, for homozygous is 0.999
• rho: Rho parameter of Beta-Binomial distribution of alternative allele