plotStationary {momentuHMM}

Plot stationary state probabilities

Description

Plot stationary state probabilities

Usage

plotStationary(
  model,
  covs = NULL,
  col = NULL,
  plotCI = FALSE,
  alpha = 0.95,
  return = FALSE,
  ...
)

Arguments

model

momentuHMM, momentuHierHMM, miHMM, or miSum object

covs

Optional data frame consisting of a single row indicating the covariate values to be used in plots. If none are specified, the means of any covariates appearing in the model are used (unless covariate is a factor, in which case the first factor in the data is used).

col

Vector or colors for the states (one color per state).

plotCI

Logical indicating whether to include confidence intervals in plots (default: FALSE)

alpha

Significance level of the confidence intervals (if plotCI=TRUE). Default: 0.95 (i.e. 95% CIs).

return

Logical indicating whether to return a list containing estimates, SEs, CIs, and covariate values used to create the plots for each mixture and state. Ignored if plotCI=FALSE. Default: FALSE.

...

Additional arguments passed to graphics::plot. These can currently include cex.axis, cex.lab, cex.legend, cex.main, legend.pos, and lwd. See par. legend.pos can be a single keyword from the list “bottomright”, “bottom”, “bottomleft”, “left”, “topleft”, “top”, “topright”, “right”, and “center”.

Examples

# m is a momentuHMM object (as returned by fitHMM), automatically loaded with the package
m <- example$m

plotStationary(m)