Simulate4M-class: An S4 class for holding simulations from a 'Model4M' class.

In lawlerem/markmodmover: Analyze animal movement data using the Markov-modulated movement model.

Description

An S4 class for holding simulations from a Model4M class.

Slots

Simulated.Locations

A 3d array holding the simulated locations with columns Date, Lon, Lat, and Group, and depth corresponding to individual simulations.

Simulated.Data

A 3d array holding the simulated movement data with columns Deflection.Angle, Step.Length, and Group, and depth corresponding to individual simulations.

Simulated.Viterbi.Path

A matrix holding the simulated state path with rows corresponding to individual simulations.

Refit.Parameters

A named list holding refit parameter estimates with the following entries:

Deflection.Angle.Parameters

A 3d array with rows corresponding to states, columns corresponding to parameters, and depth corresponding to individual simulations.

Step.Length.Parameters

A 3d array with rows corresponding to states, columns corresponding to parameters, and depth corresponding to individual simulations.

Transition.Probabilities

A 3d array with depth corresponding to individual simulations.

Stationary.Distribution

A matrix with rows corresponding to individual simulations and column corresponding to state.

Zero.Inflation

A named list containing zero-inflation parameters.

Refit.Residuals

A 3d array with columns Deflection.Angle and Step.Length, and depth corresponding to individual simulations.

Refit.Viterbi.Path

A matrix holding the refit Viterbi-estimated state path with rows corresponding to individual simulations.

Refit.Convergence

A character vector holding the convergence messages from each simulation.

Refit.Environment

A list holding the TMB environments for each simulation.

Extends

Model4M-class.

See Also

Other 4M-classes: Data4M-class, Model4M-class, SetModel4M-class, SetSim4M-class

lawlerem/markmodmover documentation built on Feb. 12, 2020, 8:30 p.m.