negll {vanquish}

Negative Log Likelihood

Description

Calculates negative log likelihood for beta binomial distribution.

Usage

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