lupost4.vec: Posterior mean of sample-specific mutation rate given the...

In kdkorthauer/MADGiC: Fits an empirical Bayesian hierarchical model to obtain posterior probabilities that each gene is a driver.

Description

Calculates the posterior mean of the sample specific mutation rate under the background mutation model. Similar to lupost2.vec except that it returns the un-normalized value for the posterior mean of the sample-specific rate.

Usage

  lupost4.vec(t, mutationexist, C, D, uniqueA, tableA,
    base)

Arguments

t	numeric value of sample-specific mutation rate (log-scale)
mutationexist	logical value indicating whether to include observed mutations in the current gene
C	subset of matrix muttable (see calculate.bij) containing only those rows corresponding to the current sample
D	numeric value corresponding to the sum of the logarithms of the first column of C
uniqueA	a numeric vector containing all unique values of A (see getA)
tableA	a numeric vector of the same length of uniqueA that contains the number of instances of each value in uniqueA
base	minimum value of the log likelihood of the sample-specific mutation rate q_j given the background model

Value

unormalized posterior mean of the sample-specific mutation rate q_j under the background mutation model given the observed mutations.

Note

This internal function is not intended to be called by the user.

kdkorthauer/MADGiC documentation built on June 13, 2020, 1:35 p.m.