HmmParameter-class {VanillaICE}R Documentation

Class "HmmParameter"

Description

Parameters needed for the Viterbi algorithm, including emission probabilities, the genomic distance, and the initial state probabilities

Objects from the Class

Objects can be created by calls of the form new("HmmParameter", states, initialStateProbability, emission, genomicDistance, transitionScale).

Slots

states:
Object of class "character"
initialStateProbability:
Object of class "numeric"
emission:
Object of class "array"
genomicDistance:
Object of class "numeric"
transitionScale:
Object of class "matrix"

Methods

[
signature(x = "HmmParameter"):
emission
signature(object = "HmmParameter"):
emission<-
signature(object = "HmmParameter", value = "array"):
genomicDistance
signature(object = "HmmParameter"):
genomicDistance<-
signature(object = "HmmParameter", value = "numeric"):
hmm
signature(object = "HmmOptions", params = "HmmParameter"):
initialize
signature(.Object = "HmmParameter"):
pi
signature(object = "HmmParameter"):
show
signature(object = "HmmParameter"):
states
signature(object = "HmmParameter"):
states<-
signature(object = "HmmParameter", value = "character"):
tau
signature(object = "HmmParameter"):
transitionScale
signature(object = "HmmParameter"):
transitionScale<-
signature(object = "HmmParameter", value = "matrix"):

Note

See HmmParameter vignette

Author(s)

RS

See Also

HmmOptions-class

Examples

showClass("HmmParameter")

[Package VanillaICE version 1.4.0 Index]