emMixHMMR: emMixHMMR implements the EM algorithm to fit a mixture if...

In flamingos: Functional Latent Data Models for Clustering Heterogeneous Curves ('FLaMingos')

Description

emMixHMMR implements the maximum-likelihood parameter estimation of a mixture of HMMR models by the Expectation-Maximization (EM) algorithm.

Usage

emMixHMMR(X, Y, K, R, p = 3, variance_type = c("heteroskedastic",
  "homoskedastic"), order_constraint = TRUE, init_kmeans = TRUE,
  n_tries = 1, max_iter = 1000, threshold = 1e-06, verbose = FALSE)

Arguments

X	Numeric vector of length m representing the covariates/inputs x_{1},…,x_{m}.
Y	Matrix of size (n, m) representing the observed responses/outputs. Y consists of n functions of X observed at points 1,…,m.
K	The number of clusters (Number of HMMR models).
R	The number of regimes (HMMR components) for each cluster.
p	Optional. The order of the polynomial regression. By default, p is set at 3.
variance_type	Optional. character indicating if the model is "homoskedastic" or "heteroskedastic". By default the model is "heteroskedastic".
order_constraint	Optional. A logical indicating whether or not a mask of order one should be applied to the transition matrix of the Markov chain to provide ordered states. For the purpose of segmentation, it must be set to TRUE (which is the default value).
init_kmeans	Optional. A logical indicating whether or not the curve partition should be initialized by the K-means algorithm. Otherwise the curve partition is initialized randomly.
n_tries	Optional. Number of runs of the EM algorithm. The solution providing the highest log-likelihood will be returned. If n_tries > 1, then for the first run, parameters are initialized by uniformly segmenting the data into K segments, and for the next runs, parameters are initialized by randomly segmenting the data into K contiguous segments.
max_iter	Optional. The maximum number of iterations for the EM algorithm.
threshold	Optional. A numeric value specifying the threshold for the relative difference of log-likelihood between two steps of the EM as stopping criteria.
verbose	Optional. A logical value indicating whether or not values of the log-likelihood should be printed during EM iterations.

Details

emMixHMMR function implements the EM algorithm. This function starts with an initialization of the parameters done by the method initParam of the class ParamMixHMMR, then it alternates between the E-Step (method of the class StatMixHMMR) and the M-Step (method of the class ParamMixHMMR) until convergence (until the relative variation of log-likelihood between two steps of the EM algorithm is less than the threshold parameter).

Value

EM returns an object of class ModelMixHMMR.

See Also

ModelMixHMMR, ParamMixHMMR, StatMixHMMR

Examples

data(toydataset)
x <- toydataset$x
Y <- t(toydataset[,2:ncol(toydataset)])

mixhmmr <- emMixHMMR(X = x, Y = Y, K = 3, R = 3, p = 1, verbose = TRUE)

mixhmmr$summary()

mixhmmr$plot()

flamingos documentation built on Aug. 6, 2019, 5:10 p.m.