calculateEmission: Calculate the emission probabilities for the 6-state HMM

In VanillaICE: A Hidden Markov Model for high throughput genotyping arrays

Description

Given the data and an object containing parameters for the HMM, this function computes emission probabilities. This function is not intended to be called by the user and is exported for internal use by other BioC packages.

Usage

calculateEmission(x, param = EmissionParam())

Arguments

x	list of low-level data with two elements: a numeric vector of log R ratios and a numeric vector of B allele frequencies
param	parameters for the 6-state HMM

Value

A matrix of emission probabilities. Column correspond to the HMM states and rows correspond to markers on the array (SNPs and nonpolymorphic markers)

See Also

baumWelchUpdate

VanillaICE documentation built on Nov. 8, 2020, 7:33 p.m.