viterbi.semi: Viterbi algorithm to decode the latent states for Gaussian...

In rarhsmm: Regularized Autoregressive Hidden Semi Markov Model

Description

Viterbi algorithm to decode the latent states for Gaussian hidden semi-Markov model with / without autoregressive structures

Usage

viterbi.semi(y, mod)

Arguments

y

observed series

mod

list consisting the at least the following items: mod$m = scalar number of states, mod$delta = vector of initial values for prior probabilities, mod$gamma = matrix of initial values for state transition probabilies. mod$mu = list of initial values for means, mod$sigma = list of initial values for covariance matrices. mod$d = list of state duration probabilities. For autoregressive hidden markov models, we also need the additional items: mod$arp = scalar order of autoregressive structure mod$auto = list of initial values for autoregressive coefficient matrices

Value

a list containing the decoded states

References

Rabiner, Lawrence R. "A tutorial on hidden Markov models and selected applications in speech recognition." Proceedings of the IEEE 77.2 (1989): 257-286.

Examples

set.seed(135)
m <- 2
mu <- list(c(3,4,5),c(-2,-3,-4))
sigma <- list(diag(1.3,3), 
            matrix(c(1,-0.3,0.2,-0.3,1.5,0.3,0.2,0.3,2),3,3,byrow=TRUE))
delta <- c(0.5,0.5)
gamma <- matrix(c(0,1,1,0),2,2,byrow=TRUE)
auto <- list(matrix(c(0.3,0.2,0.1,0.4,0.3,0.2,
                     -0.3,-0.2,-0.1,0.3,0.2,0.1,
                      0,0,0,0,0,0),3,6,byrow=TRUE),
            matrix(c(0.2,0,0,0.4,0,0,
                      0,0.2,0,0,0.4,0,
                     0,0,0.2,0,0,0.4),3,6,byrow=TRUE))
d <- list(c(0.5,0.3,0.2),c(0.6,0.4))
mod <- list(m=m,mu=mu,sigma=sigma,delta=delta,gamma=gamma,
           auto=auto,arp=2,d=d)
sim <- hsmm.sim(2000,mod)
y <- sim$series
state <- sim$state
fit <- em.semi(y=y, mod=mod, arp=2)
state_est <- viterbi.semi(y=y,mod=fit)
sum(state_est!=state)

rarhsmm documentation built on May 2, 2019, 9:33 a.m.