For a pair of variants (or two groups of variants), creates a likelihood function for a model of pairwise epistasis with a "strong mutation, weak selection" assumption.
Arguments
- with_just_1
two-item list of baseline rates in v1/v2 for tumors with mutation in just the first variant(s)
- with_just_2
two-item list of baseline rates in v1/v2 for tumors with mutation in just the second variant(s)
- with_both
two-item list of baseline rates in v1/v2 for tumors with mutation in both
- with_neither
two-item list of baseline rates in v1/v2 for tumors with mutation n neither
Details
The arguments to this function are automatically supplied by ces_epistasis() and ces_gene_epistasis().