contHMM-class: Class "contHMM"

In tileHMM: Hidden Markov Models for ChIP-on-Chip Analysis

Description

Class for HMMs with continuous emission distributions.

Objects from the Class

Objects can be created by calls of the form new("contHMM", transition, emission, init). For the special case of t distributions objects of this class can be created more conveniently by a call to getHMM. The function hmm.setup provides facilities to create "contHMM" objects with initial parameter estimates obtained from data.

Slots

transition.matrix:

Object of class "matrix", storing the transition probabilities of the Markov chain.

emission:

Object of class "list" containing objects of class "contDist" to represent emission distributions for each state.

init:

Object of class "numeric". The initial state distribution of the Markov chain.

Extends

Class "hmm", directly.

Methods

sampleSeq

signature(hmm = "contHMM", size = "numeric"): Sample observation sequence of length size from model

Author(s)

Peter Humburg

See Also

contDist, tDist,hmm, initialize, sampleSeq, baumWelch, viterbiTraining, viterbi, forward, backward, states

Examples

showClass("contHMM")

tileHMM documentation built on May 30, 2017, 3:41 a.m.