hsmmsim: Simulate a hidden semi-Markov series and its corresponding...

In ziphsmm: Zero-Inflated Poisson Hidden (Semi-)Markov Models

Description

Simulate a hidden semi-Markov series and its corresponding states according to the specified parameters

Usage

hsmmsim(n, M, prior, dt_dist = "nonparametric", dt_parm, tpm_parm, emit_parm,
  zeroprop)

Arguments

n	length of the simulated series
M	number of hidden states
prior	a vector of prior probability for each state
dt_dist	dwell time distribution, which should be "log" or "shiftpoisson" or "nonparametric". Default to "nonparametric".
dt_parm	a vector of dwell time distribution parameters for each state. If dt_dist is "log", then dt_parm is vector of p's; if dt_dist is "shiftpoisson", then dt_parm is vector of theta's; if dt_dist is "nonparametric", then dt_parm is a matrix whose i,j th element is the probability of staying in state i for duration j.
tpm_parm	transition probability matrix, whose diagonal should be zero's.
emit_parm	a vector containing means for each poisson distribution
zeroprop	a vector containing structural zero proportions in each state

Value

simulated series and corresponding states

References

Walter Zucchini, Iain L. MacDonald, Roland Langrock. Hidden Markov Models for Time Series: An Introduction Using R, Second Edition. Chapman & Hall/CRC

Examples

prior_init <- c(0.5,0.2,0.3)
dt_init <- c(0.8,0.5,0.2)
emit_init <- c(10,50,100)
zeroprop <- c(0.6,0.3,0.1)
omega <- matrix(c(0,0.3,0.7,0.4,0,0.6,0.5,0.5,0),3,3,byrow=TRUE)
sim1 <- hsmmsim(n=1000,M=3,prior=prior_init,dt_dist="log",
         dt_parm=dt_init, tpm_parm=omega,
         emit_parm=emit_init,zeroprop=zeroprop)
str(sim1)

prior_init <- c(0.5,0.5)
dt_init <- c(10,5)
emit_init <- c(10,30)
zeroprop <- c(0.5,0)
omega <- matrix(c(0,1,1,0),2,2,byrow=TRUE)
sim2 <- hsmmsim(n=1000,M=2,prior=prior_init,dt_dist="shiftpoisson",
         dt_parm=dt_init, tpm_parm=omega,
         emit_parm=emit_init,zeroprop=zeroprop)
str(sim2)
hist(sim2$series,main="Histogram of observed values",xlab="observed values")

ziphsmm documentation built on May 2, 2019, 6:10 a.m.